-- dump date 20140619_003644 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1208658000001 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1208658000002 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1208658000003 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1208658000004 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1208658000005 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1208658000006 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1208658000007 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 1208658000008 P-loop; other site 1208658000009 Magnesium ion binding site [ion binding]; other site 1208658000010 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 1208658000011 Magnesium ion binding site [ion binding]; other site 1208658000012 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208658000013 Coenzyme A binding pocket [chemical binding]; other site 1208658000014 ParB-like nuclease domain; Region: ParB; smart00470 1208658000015 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1208658000016 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1208658000017 active site 1208658000018 homotetramer interface [polypeptide binding]; other site 1208658000019 homodimer interface [polypeptide binding]; other site 1208658000020 elongation factor Tu; Reviewed; Region: PRK00049 1208658000021 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1208658000022 G1 box; other site 1208658000023 GEF interaction site [polypeptide binding]; other site 1208658000024 GTP/Mg2+ binding site [chemical binding]; other site 1208658000025 Switch I region; other site 1208658000026 G2 box; other site 1208658000027 G3 box; other site 1208658000028 Switch II region; other site 1208658000029 G4 box; other site 1208658000030 G5 box; other site 1208658000031 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 1208658000032 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 1208658000033 Antibiotic Binding Site [chemical binding]; other site 1208658000034 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1208658000035 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1208658000036 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1208658000037 putative homodimer interface [polypeptide binding]; other site 1208658000038 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1208658000039 heterodimer interface [polypeptide binding]; other site 1208658000040 homodimer interface [polypeptide binding]; other site 1208658000041 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1208658000042 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 1208658000043 23S rRNA interface [nucleotide binding]; other site 1208658000044 L7/L12 interface [polypeptide binding]; other site 1208658000045 putative thiostrepton binding site; other site 1208658000046 L25 interface [polypeptide binding]; other site 1208658000047 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 1208658000048 mRNA/rRNA interface [nucleotide binding]; other site 1208658000049 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 1208658000050 23S rRNA interface [nucleotide binding]; other site 1208658000051 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1208658000052 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 1208658000053 core dimer interface [polypeptide binding]; other site 1208658000054 peripheral dimer interface [polypeptide binding]; other site 1208658000055 L10 interface [polypeptide binding]; other site 1208658000056 L11 interface [polypeptide binding]; other site 1208658000057 putative EF-Tu interaction site [polypeptide binding]; other site 1208658000058 putative EF-G interaction site [polypeptide binding]; other site 1208658000059 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1208658000060 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 1208658000061 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1208658000062 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 1208658000063 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1208658000064 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 1208658000065 RPB3 interaction site [polypeptide binding]; other site 1208658000066 RPB1 interaction site [polypeptide binding]; other site 1208658000067 RPB11 interaction site [polypeptide binding]; other site 1208658000068 RPB10 interaction site [polypeptide binding]; other site 1208658000069 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1208658000070 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1208658000071 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1208658000072 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1208658000073 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1208658000074 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1208658000075 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1208658000076 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1208658000077 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1208658000078 DNA binding site [nucleotide binding] 1208658000079 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1208658000080 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1208658000081 substrate binding site [chemical binding]; other site 1208658000082 activation loop (A-loop); other site 1208658000083 PEGA domain; Region: PEGA; pfam08308 1208658000084 CHASE2 domain; Region: CHASE2; pfam05226 1208658000085 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1208658000086 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 1208658000087 dimer interface [polypeptide binding]; other site 1208658000088 phosphorylation site [posttranslational modification] 1208658000089 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 1208658000090 ATP binding site [chemical binding]; other site 1208658000091 Mg2+ binding site [ion binding]; other site 1208658000092 G-X-G motif; other site 1208658000093 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1208658000094 FecR protein; Region: FecR; pfam04773 1208658000095 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208658000096 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 1208658000097 active site 1208658000098 phosphorylation site [posttranslational modification] 1208658000099 intermolecular recognition site; other site 1208658000100 dimerization interface [polypeptide binding]; other site 1208658000101 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 1208658000102 DNA binding site [nucleotide binding] 1208658000103 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208658000104 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 1208658000105 active site 1208658000106 phosphorylation site [posttranslational modification] 1208658000107 intermolecular recognition site; other site 1208658000108 dimerization interface [polypeptide binding]; other site 1208658000109 DNA binding site [nucleotide binding] 1208658000110 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 1208658000111 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 1208658000112 S17 interaction site [polypeptide binding]; other site 1208658000113 S8 interaction site; other site 1208658000114 16S rRNA interaction site [nucleotide binding]; other site 1208658000115 streptomycin interaction site [chemical binding]; other site 1208658000116 23S rRNA interaction site [nucleotide binding]; other site 1208658000117 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1208658000118 30S ribosomal protein S7; Validated; Region: PRK05302 1208658000119 elongation factor G; Reviewed; Region: PRK00007 1208658000120 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1208658000121 G1 box; other site 1208658000122 putative GEF interaction site [polypeptide binding]; other site 1208658000123 GTP/Mg2+ binding site [chemical binding]; other site 1208658000124 Switch I region; other site 1208658000125 G2 box; other site 1208658000126 G3 box; other site 1208658000127 Switch II region; other site 1208658000128 G4 box; other site 1208658000129 G5 box; other site 1208658000130 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 1208658000131 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 1208658000132 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 1208658000133 elongation factor Tu; Reviewed; Region: PRK00049 1208658000134 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1208658000135 G1 box; other site 1208658000136 GEF interaction site [polypeptide binding]; other site 1208658000137 GTP/Mg2+ binding site [chemical binding]; other site 1208658000138 Switch I region; other site 1208658000139 G2 box; other site 1208658000140 G3 box; other site 1208658000141 Switch II region; other site 1208658000142 G4 box; other site 1208658000143 G5 box; other site 1208658000144 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 1208658000145 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 1208658000146 Antibiotic Binding Site [chemical binding]; other site 1208658000147 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1208658000148 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1208658000149 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1208658000150 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1208658000151 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1208658000152 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1208658000153 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1208658000154 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1208658000155 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 1208658000156 putative translocon binding site; other site 1208658000157 protein-rRNA interface [nucleotide binding]; other site 1208658000158 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1208658000159 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 1208658000160 G-X-X-G motif; other site 1208658000161 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1208658000162 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 1208658000163 23S rRNA interface [nucleotide binding]; other site 1208658000164 5S rRNA interface [nucleotide binding]; other site 1208658000165 putative antibiotic binding site [chemical binding]; other site 1208658000166 L25 interface [polypeptide binding]; other site 1208658000167 L27 interface [polypeptide binding]; other site 1208658000168 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 1208658000169 23S rRNA interface [nucleotide binding]; other site 1208658000170 putative translocon interaction site; other site 1208658000171 signal recognition particle (SRP54) interaction site; other site 1208658000172 L23 interface [polypeptide binding]; other site 1208658000173 trigger factor interaction site; other site 1208658000174 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1208658000175 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208658000176 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208658000177 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1208658000178 tetramerization interface [polypeptide binding]; other site 1208658000179 NAD(P) binding site [chemical binding]; other site 1208658000180 catalytic residues [active] 1208658000181 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1208658000182 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1208658000183 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1208658000184 RNA binding site [nucleotide binding]; other site 1208658000185 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1208658000186 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1208658000187 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1208658000188 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1208658000189 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1208658000190 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1208658000191 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1208658000192 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1208658000193 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 1208658000194 5S rRNA interface [nucleotide binding]; other site 1208658000195 L27 interface [polypeptide binding]; other site 1208658000196 23S rRNA interface [nucleotide binding]; other site 1208658000197 L5 interface [polypeptide binding]; other site 1208658000198 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1208658000199 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1208658000200 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1208658000201 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 1208658000202 23S rRNA binding site [nucleotide binding]; other site 1208658000203 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1208658000204 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1208658000205 SecY translocase; Region: SecY; pfam00344 1208658000206 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 1208658000207 rRNA binding site [nucleotide binding]; other site 1208658000208 predicted 30S ribosome binding site; other site 1208658000209 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1208658000210 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1208658000211 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1208658000212 30S ribosomal protein S11; Validated; Region: PRK05309 1208658000213 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1208658000214 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1208658000215 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 1208658000216 RNA binding surface [nucleotide binding]; other site 1208658000217 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1208658000218 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1208658000219 alphaNTD homodimer interface [polypeptide binding]; other site 1208658000220 alphaNTD - beta interaction site [polypeptide binding]; other site 1208658000221 alphaNTD - beta' interaction site [polypeptide binding]; other site 1208658000222 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1208658000223 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1208658000224 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1208658000225 nucleotide binding site/active site [active] 1208658000226 HIT family signature motif; other site 1208658000227 catalytic residue [active] 1208658000228 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1208658000229 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 1208658000230 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1208658000231 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1208658000232 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 1208658000233 DsbD alpha interface [polypeptide binding]; other site 1208658000234 catalytic residues [active] 1208658000235 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208658000236 EamA-like transporter family; Region: EamA; pfam00892 1208658000237 EamA-like transporter family; Region: EamA; pfam00892 1208658000238 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 1208658000239 dimer interface [polypeptide binding]; other site 1208658000240 active site 1208658000241 aspartate-rich active site metal binding site; other site 1208658000242 allosteric magnesium binding site [ion binding]; other site 1208658000243 Schiff base residues; other site 1208658000244 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1208658000245 G1 box; other site 1208658000246 GTP/Mg2+ binding site [chemical binding]; other site 1208658000247 Switch I region; other site 1208658000248 G2 box; other site 1208658000249 G3 box; other site 1208658000250 Switch II region; other site 1208658000251 G4 box; other site 1208658000252 G5 box; other site 1208658000253 Cytochrome c; Region: Cytochrom_C; cl11414 1208658000254 Cytochrome c; Region: Cytochrom_C; cl11414 1208658000255 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1208658000256 ResB-like family; Region: ResB; pfam05140 1208658000257 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1208658000258 ResB-like family; Region: ResB; pfam05140 1208658000259 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1208658000260 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1208658000261 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1208658000262 active site 1208658000263 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1208658000264 substrate binding site [chemical binding]; other site 1208658000265 catalytic residues [active] 1208658000266 dimer interface [polypeptide binding]; other site 1208658000267 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 1208658000268 putative iron binding site [ion binding]; other site 1208658000269 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1208658000270 Transglycosylase; Region: Transgly; pfam00912 1208658000271 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1208658000272 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 1208658000273 shikimate kinase; Reviewed; Region: aroK; PRK00131 1208658000274 ADP binding site [chemical binding]; other site 1208658000275 magnesium binding site [ion binding]; other site 1208658000276 putative shikimate binding site; other site 1208658000277 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1208658000278 active site 1208658000279 dimer interface [polypeptide binding]; other site 1208658000280 metal binding site [ion binding]; metal-binding site 1208658000281 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1208658000282 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1208658000283 Zn2+ binding site [ion binding]; other site 1208658000284 Mg2+ binding site [ion binding]; other site 1208658000285 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1208658000286 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 1208658000287 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1208658000288 putative C-terminal domain interface [polypeptide binding]; other site 1208658000289 putative GSH binding site (G-site) [chemical binding]; other site 1208658000290 putative dimer interface [polypeptide binding]; other site 1208658000291 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1208658000292 putative substrate binding pocket (H-site) [chemical binding]; other site 1208658000293 putative N-terminal domain interface [polypeptide binding]; other site 1208658000294 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1208658000295 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1208658000296 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1208658000297 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1208658000298 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 1208658000299 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208658000300 putative substrate translocation pore; other site 1208658000301 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1208658000302 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 1208658000303 dimer interface [polypeptide binding]; other site 1208658000304 ssDNA binding site [nucleotide binding]; other site 1208658000305 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1208658000306 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1208658000307 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 1208658000308 N-terminal plug; other site 1208658000309 ligand-binding site [chemical binding]; other site 1208658000310 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1208658000311 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1208658000312 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658000313 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208658000314 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658000315 DNA-binding site [nucleotide binding]; DNA binding site 1208658000316 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1208658000317 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658000318 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658000319 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1208658000320 substrate binding pocket [chemical binding]; other site 1208658000321 dimerization interface [polypeptide binding]; other site 1208658000322 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06151 1208658000323 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 1208658000324 active site 1208658000325 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658000326 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208658000327 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 1208658000328 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; pfam10707 1208658000329 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658000330 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658000331 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 1208658000332 dimerization interface [polypeptide binding]; other site 1208658000333 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1208658000334 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1208658000335 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 1208658000336 membrane-bound complex binding site; other site 1208658000337 hinge residues; other site 1208658000338 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208658000339 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658000340 dimer interface [polypeptide binding]; other site 1208658000341 conserved gate region; other site 1208658000342 putative PBP binding loops; other site 1208658000343 ABC-ATPase subunit interface; other site 1208658000344 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208658000345 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208658000346 Walker A/P-loop; other site 1208658000347 ATP binding site [chemical binding]; other site 1208658000348 Q-loop/lid; other site 1208658000349 ABC transporter signature motif; other site 1208658000350 Walker B; other site 1208658000351 D-loop; other site 1208658000352 H-loop/switch region; other site 1208658000353 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208658000354 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1208658000356 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658000357 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658000358 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1208658000359 malate synthase G; Provisional; Region: PRK02999 1208658000360 active site 1208658000361 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 1208658000362 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658000363 DNA-binding site [nucleotide binding]; DNA binding site 1208658000364 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1208658000365 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1208658000366 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1208658000367 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1208658000368 UbiA prenyltransferase family; Region: UbiA; pfam01040 1208658000369 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1208658000370 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 1208658000371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658000372 homodimer interface [polypeptide binding]; other site 1208658000373 catalytic residue [active] 1208658000374 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1208658000375 GAF domain; Region: GAF_2; pfam13185 1208658000376 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1208658000377 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1208658000378 dimer interface [polypeptide binding]; other site 1208658000379 active site 1208658000380 catalytic residue [active] 1208658000381 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 1208658000382 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1208658000383 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1208658000384 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 1208658000385 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 1208658000386 dimer interface [polypeptide binding]; other site 1208658000387 active site 1208658000388 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1208658000389 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1208658000390 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 1208658000391 S-adenosylmethionine binding site [chemical binding]; other site 1208658000392 choline dehydrogenase; Validated; Region: PRK02106 1208658000393 lycopene cyclase; Region: lycopene_cycl; TIGR01789 1208658000394 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1208658000395 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 1208658000396 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 1208658000397 Uncharacterized conserved protein [Function unknown]; Region: COG2928 1208658000398 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1208658000399 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 1208658000400 dimer interface [polypeptide binding]; other site 1208658000401 anticodon binding site; other site 1208658000402 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 1208658000403 homodimer interface [polypeptide binding]; other site 1208658000404 motif 1; other site 1208658000405 active site 1208658000406 motif 2; other site 1208658000407 GAD domain; Region: GAD; pfam02938 1208658000408 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 1208658000409 motif 3; other site 1208658000410 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1208658000411 putative catalytic site [active] 1208658000412 putative metal binding site [ion binding]; other site 1208658000413 putative phosphate binding site [ion binding]; other site 1208658000414 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1208658000415 PLD-like domain; Region: PLDc_2; pfam13091 1208658000416 putative active site [active] 1208658000417 catalytic site [active] 1208658000418 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1208658000419 PLD-like domain; Region: PLDc_2; pfam13091 1208658000420 putative active site [active] 1208658000421 catalytic site [active] 1208658000422 EamA-like transporter family; Region: EamA; pfam00892 1208658000423 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208658000424 EamA-like transporter family; Region: EamA; pfam00892 1208658000425 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 1208658000426 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208658000427 putative substrate translocation pore; other site 1208658000428 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 1208658000429 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 1208658000430 putative hydrophobic ligand binding site [chemical binding]; other site 1208658000431 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208658000432 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 1208658000433 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1208658000434 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 1208658000435 active site 1208658000436 dimer interface [polypeptide binding]; other site 1208658000437 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 1208658000438 Ligand Binding Site [chemical binding]; other site 1208658000439 Molecular Tunnel; other site 1208658000440 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1208658000441 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 1208658000442 active site 1208658000443 dimer interface [polypeptide binding]; other site 1208658000444 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 1208658000445 Ligand Binding Site [chemical binding]; other site 1208658000446 Molecular Tunnel; other site 1208658000447 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208658000448 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: GT1_like_1; cd04950 1208658000449 putative homodimer interface [polypeptide binding]; other site 1208658000450 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1208658000451 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 1208658000452 S-adenosylmethionine binding site [chemical binding]; other site 1208658000453 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1208658000454 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1208658000455 Walker A/P-loop; other site 1208658000456 ATP binding site [chemical binding]; other site 1208658000457 Q-loop/lid; other site 1208658000458 ABC transporter signature motif; other site 1208658000459 Walker B; other site 1208658000460 D-loop; other site 1208658000461 H-loop/switch region; other site 1208658000462 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1208658000463 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1208658000464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658000465 NAD(P) binding site [chemical binding]; other site 1208658000466 active site 1208658000467 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1208658000468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658000469 NAD(P) binding site [chemical binding]; other site 1208658000470 active site 1208658000471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658000472 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1208658000473 NAD(P) binding site [chemical binding]; other site 1208658000474 active site 1208658000475 Bordetella bronchiseptica enzymes WbmH and WbmG-like, extended (e) SDRs; Region: WbmH_like_SDR_e; cd08957 1208658000476 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1208658000477 NAD binding site [chemical binding]; other site 1208658000478 homodimer interface [polypeptide binding]; other site 1208658000479 active site 1208658000480 putative substrate binding site [chemical binding]; other site 1208658000481 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1208658000482 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 1208658000483 active site 1208658000484 dimer interface [polypeptide binding]; other site 1208658000485 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 1208658000486 Ligand Binding Site [chemical binding]; other site 1208658000487 Molecular Tunnel; other site 1208658000488 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 1208658000489 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208658000490 This family is most closely related to the GT1 family of glycosyltransferases. AmsK is involved in the biosynthesis of amylovoran, which functions as a virulence factor. It functions as a glycosyl transferase which transfers galactose from UDP-galactose...; Region: GT1_AmsK_like; cd04946 1208658000491 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1208658000492 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 1208658000493 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1208658000494 NAD(P) binding site [chemical binding]; other site 1208658000495 homodimer interface [polypeptide binding]; other site 1208658000496 substrate binding site [chemical binding]; other site 1208658000497 active site 1208658000498 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 1208658000499 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 1208658000500 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208658000501 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1208658000502 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1208658000503 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 1208658000504 inhibitor-cofactor binding pocket; inhibition site 1208658000505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658000506 catalytic residue [active] 1208658000507 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208658000508 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 1208658000509 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 1208658000510 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1208658000511 homodimer interface [polypeptide binding]; other site 1208658000512 active site 1208658000513 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1208658000514 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 1208658000515 inhibitor-cofactor binding pocket; inhibition site 1208658000516 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658000517 catalytic residue [active] 1208658000518 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 1208658000519 putative CoA binding site [chemical binding]; other site 1208658000520 putative trimer interface [polypeptide binding]; other site 1208658000521 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 1208658000522 putative trimer interface [polypeptide binding]; other site 1208658000523 putative active site [active] 1208658000524 putative substrate binding site [chemical binding]; other site 1208658000525 putative CoA binding site [chemical binding]; other site 1208658000526 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1208658000527 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1208658000528 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1208658000529 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 1208658000530 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 1208658000531 putative active site [active] 1208658000532 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1208658000533 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1208658000534 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 1208658000535 pantothenate kinase; Reviewed; Region: PRK13328 1208658000536 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1208658000537 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1208658000538 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1208658000539 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1208658000540 Permease; Region: Permease; pfam02405 1208658000541 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1208658000542 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1208658000543 Walker A/P-loop; other site 1208658000544 ATP binding site [chemical binding]; other site 1208658000545 Q-loop/lid; other site 1208658000546 ABC transporter signature motif; other site 1208658000547 Walker B; other site 1208658000548 D-loop; other site 1208658000549 H-loop/switch region; other site 1208658000550 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1208658000551 mce related protein; Region: MCE; pfam02470 1208658000552 Protein of unknown function (DUF330); Region: DUF330; cl01135 1208658000553 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1208658000554 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1208658000555 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1208658000556 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1208658000557 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1208658000558 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 1208658000559 homodimer interface [polypeptide binding]; other site 1208658000560 substrate-cofactor binding pocket; other site 1208658000561 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658000562 catalytic residue [active] 1208658000563 hypothetical protein; Provisional; Region: PRK02047 1208658000564 lipoate-protein ligase B; Provisional; Region: PRK14349 1208658000565 lipoyl synthase; Provisional; Region: PRK05481 1208658000566 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 1208658000567 FeS/SAM binding site; other site 1208658000568 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 1208658000569 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1208658000570 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1208658000571 NADP binding site [chemical binding]; other site 1208658000572 active site 1208658000573 putative substrate binding site [chemical binding]; other site 1208658000574 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1208658000575 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1208658000576 NAD binding site [chemical binding]; other site 1208658000577 substrate binding site [chemical binding]; other site 1208658000578 homodimer interface [polypeptide binding]; other site 1208658000579 active site 1208658000580 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 1208658000581 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1208658000582 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1208658000583 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 1208658000584 Walker A motif; other site 1208658000585 ATP binding site [chemical binding]; other site 1208658000586 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1208658000587 Walker B motif; other site 1208658000588 arginine finger; other site 1208658000589 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1208658000590 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 1208658000591 active site 1208658000592 HslU subunit interaction site [polypeptide binding]; other site 1208658000593 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1208658000594 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1208658000595 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 1208658000596 P-loop, Walker A motif; other site 1208658000597 Base recognition motif; other site 1208658000598 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1208658000599 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1208658000600 metal binding site 2 [ion binding]; metal-binding site 1208658000601 putative DNA binding helix; other site 1208658000602 metal binding site 1 [ion binding]; metal-binding site 1208658000603 dimer interface [polypeptide binding]; other site 1208658000604 structural Zn2+ binding site [ion binding]; other site 1208658000605 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1208658000606 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1208658000607 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1208658000608 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 1208658000609 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 1208658000610 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1208658000611 metal binding site [ion binding]; metal-binding site 1208658000612 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 1208658000613 High-affinity nickel-transport protein; Region: NicO; cl00964 1208658000614 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1208658000615 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1208658000616 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1208658000617 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1208658000618 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 1208658000619 active site 1208658000620 DNA binding site [nucleotide binding] 1208658000621 Int/Topo IB signature motif; other site 1208658000622 Protein of unknown function, DUF484; Region: DUF484; cl17449 1208658000623 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1208658000624 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1208658000625 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1208658000626 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1208658000627 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1208658000628 putative acyl-acceptor binding pocket; other site 1208658000629 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1208658000630 putative acyl-acceptor binding pocket; other site 1208658000631 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1208658000632 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1208658000633 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1208658000634 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1208658000635 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1208658000636 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208658000637 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 1208658000638 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1208658000639 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1208658000640 homotetramer interface [polypeptide binding]; other site 1208658000641 ligand binding site [chemical binding]; other site 1208658000642 catalytic site [active] 1208658000643 NAD binding site [chemical binding]; other site 1208658000644 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 1208658000645 FAD binding site [chemical binding]; other site 1208658000646 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658000647 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658000648 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 1208658000649 dimerization interface [polypeptide binding]; other site 1208658000650 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1208658000651 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1208658000652 active site 1208658000653 Zn binding site [ion binding]; other site 1208658000654 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 1208658000655 metabolite-proton symporter; Region: 2A0106; TIGR00883 1208658000656 putative substrate translocation pore; other site 1208658000657 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 1208658000658 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1208658000659 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 1208658000660 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1208658000661 catalytic residue [active] 1208658000662 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13297 1208658000663 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1208658000664 active site 1208658000665 NTP binding site [chemical binding]; other site 1208658000666 metal binding triad [ion binding]; metal-binding site 1208658000667 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1208658000668 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1208658000669 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1208658000670 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 1208658000671 ATP binding site [chemical binding]; other site 1208658000672 Mg++ binding site [ion binding]; other site 1208658000673 motif III; other site 1208658000674 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 1208658000675 nucleotide binding region [chemical binding]; other site 1208658000676 ATP-binding site [chemical binding]; other site 1208658000677 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1208658000678 ligand binding site [chemical binding]; other site 1208658000679 active site 1208658000680 UGI interface [polypeptide binding]; other site 1208658000681 catalytic site [active] 1208658000682 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1208658000683 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 1208658000684 motif II; other site 1208658000685 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1208658000686 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1208658000687 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1208658000688 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1208658000689 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 1208658000690 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208658000691 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1208658000692 nucleotide binding site/active site [active] 1208658000693 HIT family signature motif; other site 1208658000694 catalytic residue [active] 1208658000695 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1208658000696 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208658000697 Coenzyme A binding pocket [chemical binding]; other site 1208658000698 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 1208658000699 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1208658000700 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1208658000701 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1208658000702 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 1208658000703 putative DNA binding site [nucleotide binding]; other site 1208658000704 putative Zn2+ binding site [ion binding]; other site 1208658000705 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 1208658000706 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1208658000707 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658000708 acyl-activating enzyme (AAE) consensus motif; other site 1208658000709 active site 1208658000710 AMP binding site [chemical binding]; other site 1208658000711 CoA binding site [chemical binding]; other site 1208658000712 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658000713 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658000714 Walker A/P-loop; other site 1208658000715 ATP binding site [chemical binding]; other site 1208658000716 Q-loop/lid; other site 1208658000717 ABC transporter signature motif; other site 1208658000718 Walker B; other site 1208658000719 D-loop; other site 1208658000720 H-loop/switch region; other site 1208658000721 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 1208658000722 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208658000723 putative ligand binding site [chemical binding]; other site 1208658000724 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658000725 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 1208658000726 TM-ABC transporter signature motif; other site 1208658000727 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658000728 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 1208658000729 TM-ABC transporter signature motif; other site 1208658000730 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658000731 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658000732 Walker A/P-loop; other site 1208658000733 ATP binding site [chemical binding]; other site 1208658000734 Q-loop/lid; other site 1208658000735 ABC transporter signature motif; other site 1208658000736 Walker B; other site 1208658000737 D-loop; other site 1208658000738 H-loop/switch region; other site 1208658000739 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1208658000740 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658000741 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1208658000742 acyl-activating enzyme (AAE) consensus motif; other site 1208658000743 putative AMP binding site [chemical binding]; other site 1208658000744 putative active site [active] 1208658000745 putative CoA binding site [chemical binding]; other site 1208658000746 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1208658000747 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 1208658000748 ligand binding site [chemical binding]; other site 1208658000749 flexible hinge region; other site 1208658000750 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1208658000751 LysE type translocator; Region: LysE; cl00565 1208658000752 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1208658000753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658000754 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 1208658000755 dimerization interface [polypeptide binding]; other site 1208658000756 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1208658000757 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658000758 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1208658000759 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1208658000760 catalytic residue [active] 1208658000761 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 1208658000762 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1208658000763 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658000764 homodimer interface [polypeptide binding]; other site 1208658000765 catalytic residue [active] 1208658000766 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1208658000767 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 1208658000768 substrate binding pocket [chemical binding]; other site 1208658000769 membrane-bound complex binding site; other site 1208658000770 hinge residues; other site 1208658000771 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 1208658000772 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1208658000773 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1208658000774 active site 1208658000775 catalytic residues [active] 1208658000776 metal binding site [ion binding]; metal-binding site 1208658000777 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1208658000778 DNA protecting protein DprA; Region: dprA; TIGR00732 1208658000779 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208658000780 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 1208658000781 putative DNA binding site [nucleotide binding]; other site 1208658000782 putative Zn2+ binding site [ion binding]; other site 1208658000783 AsnC family; Region: AsnC_trans_reg; pfam01037 1208658000784 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 1208658000785 kynureninase; Region: kynureninase; TIGR01814 1208658000786 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208658000787 catalytic residue [active] 1208658000788 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 1208658000789 active site 1208658000790 catalytic residues [active] 1208658000791 metal binding site [ion binding]; metal-binding site 1208658000792 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1208658000793 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1208658000794 putative active site [active] 1208658000795 substrate binding site [chemical binding]; other site 1208658000796 putative cosubstrate binding site; other site 1208658000797 catalytic site [active] 1208658000798 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1208658000799 substrate binding site [chemical binding]; other site 1208658000800 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 1208658000801 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1208658000802 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 1208658000803 motif II; other site 1208658000804 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1208658000805 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1208658000806 Ferritin-like domain; Region: Ferritin; pfam00210 1208658000807 dinuclear metal binding motif [ion binding]; other site 1208658000808 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1208658000809 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1208658000810 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 1208658000811 FeS/SAM binding site; other site 1208658000812 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 1208658000813 active site 1 [active] 1208658000814 dimer interface [polypeptide binding]; other site 1208658000815 hexamer interface [polypeptide binding]; other site 1208658000816 active site 2 [active] 1208658000817 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1208658000818 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208658000819 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658000820 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658000821 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658000822 DNA-binding site [nucleotide binding]; DNA binding site 1208658000823 FCD domain; Region: FCD; pfam07729 1208658000824 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1208658000825 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1208658000826 L-aspartate dehydrogenase; Provisional; Region: PRK13303 1208658000827 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1208658000828 Domain of unknown function DUF108; Region: DUF108; pfam01958 1208658000829 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1208658000830 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1208658000831 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 1208658000832 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 1208658000833 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1208658000834 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 1208658000835 dimerization interface [polypeptide binding]; other site 1208658000836 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 1208658000837 dimer interface [polypeptide binding]; other site 1208658000838 phosphorylation site [posttranslational modification] 1208658000839 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 1208658000840 ATP binding site [chemical binding]; other site 1208658000841 Mg2+ binding site [ion binding]; other site 1208658000842 G-X-G motif; other site 1208658000843 Response regulator receiver domain; Region: Response_reg; pfam00072 1208658000844 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 1208658000845 active site 1208658000846 phosphorylation site [posttranslational modification] 1208658000847 intermolecular recognition site; other site 1208658000848 dimerization interface [polypeptide binding]; other site 1208658000849 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1208658000850 TrkA-N domain; Region: TrkA_N; pfam02254 1208658000851 TrkA-C domain; Region: TrkA_C; pfam02080 1208658000852 TrkA-N domain; Region: TrkA_N; pfam02254 1208658000853 TrkA-C domain; Region: TrkA_C; pfam02080 1208658000854 Cation transport protein; Region: TrkH; cl17365 1208658000855 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1208658000856 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1208658000857 MarR family; Region: MarR_2; pfam12802 1208658000858 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1208658000859 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1208658000860 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1208658000861 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1208658000862 Ligand binding site; other site 1208658000863 metal-binding site 1208658000864 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1208658000865 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1208658000866 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208658000867 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1208658000868 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 1208658000869 Isochorismatase family; Region: Isochorismatase; pfam00857 1208658000870 catalytic triad [active] 1208658000871 conserved cis-peptide bond; other site 1208658000872 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 1208658000873 inter-subunit interface; other site 1208658000874 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1208658000875 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 1208658000876 iron-sulfur cluster [ion binding]; other site 1208658000877 [2Fe-2S] cluster binding site [ion binding]; other site 1208658000878 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 1208658000879 putative alpha subunit interface [polypeptide binding]; other site 1208658000880 putative active site [active] 1208658000881 putative substrate binding site [chemical binding]; other site 1208658000882 Fe binding site [ion binding]; other site 1208658000883 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1208658000884 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208658000885 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 1208658000886 [2Fe-2S] cluster binding site [ion binding]; other site 1208658000887 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1208658000888 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658000889 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1208658000890 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1208658000891 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1208658000892 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 1208658000893 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1208658000894 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 1208658000895 catalytic loop [active] 1208658000896 iron binding site [ion binding]; other site 1208658000897 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1208658000898 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 1208658000899 putative hydrophobic ligand binding site [chemical binding]; other site 1208658000900 NMT1/THI5 like; Region: NMT1; pfam09084 1208658000901 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1208658000902 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208658000903 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208658000904 Walker A/P-loop; other site 1208658000905 ATP binding site [chemical binding]; other site 1208658000906 Q-loop/lid; other site 1208658000907 ABC transporter signature motif; other site 1208658000908 Walker B; other site 1208658000909 D-loop; other site 1208658000910 H-loop/switch region; other site 1208658000911 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208658000912 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658000913 ABC-ATPase subunit interface; other site 1208658000914 putative PBP binding loops; other site 1208658000915 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1208658000916 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1208658000917 DctM-like transporters; Region: DctM; pfam06808 1208658000918 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208658000919 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 1208658000920 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1208658000921 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1208658000922 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 1208658000923 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1208658000924 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1208658000925 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658000926 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1208658000927 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1208658000928 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1208658000929 preprotein translocase subunit SecB; Validated; Region: PRK05751 1208658000930 SecA binding site; other site 1208658000931 Preprotein binding site; other site 1208658000932 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 1208658000933 GSH binding site [chemical binding]; other site 1208658000934 catalytic residues [active] 1208658000935 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 1208658000936 active site residue [active] 1208658000937 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 1208658000938 catalytic core [active] 1208658000939 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 1208658000940 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1208658000941 Peptidase family M23; Region: Peptidase_M23; pfam01551 1208658000942 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1208658000943 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1208658000944 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 1208658000945 protein binding site [polypeptide binding]; other site 1208658000946 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1208658000947 Catalytic dyad [active] 1208658000948 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1208658000949 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 1208658000950 ATP binding site [chemical binding]; other site 1208658000951 substrate interface [chemical binding]; other site 1208658000952 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1208658000953 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658000954 DNA-binding site [nucleotide binding]; DNA binding site 1208658000955 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1208658000956 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1208658000957 FAD binding domain; Region: FAD_binding_4; pfam01565 1208658000958 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1208658000959 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208658000960 NAD(P) binding site [chemical binding]; other site 1208658000961 catalytic residues [active] 1208658000962 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1208658000963 ThiC-associated domain; Region: ThiC-associated; pfam13667 1208658000964 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1208658000965 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1208658000966 HindIII restriction endonuclease; Region: RE_HindIII; pfam09518 1208658000967 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 1208658000968 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 1208658000969 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1208658000970 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 1208658000971 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 1208658000972 non-specific DNA binding site [nucleotide binding]; other site 1208658000973 salt bridge; other site 1208658000974 sequence-specific DNA binding site [nucleotide binding]; other site 1208658000975 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 1208658000976 non-specific DNA binding site [nucleotide binding]; other site 1208658000977 salt bridge; other site 1208658000978 sequence-specific DNA binding site [nucleotide binding]; other site 1208658000979 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208658000980 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 1208658000981 gamma-glutamyl kinase; Provisional; Region: PRK05429 1208658000982 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 1208658000983 nucleotide binding site [chemical binding]; other site 1208658000984 homotetrameric interface [polypeptide binding]; other site 1208658000985 putative phosphate binding site [ion binding]; other site 1208658000986 putative allosteric binding site; other site 1208658000987 PUA domain; Region: PUA; pfam01472 1208658000988 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1208658000989 GTP1/OBG; Region: GTP1_OBG; pfam01018 1208658000990 Obg GTPase; Region: Obg; cd01898 1208658000991 G1 box; other site 1208658000992 GTP/Mg2+ binding site [chemical binding]; other site 1208658000993 Switch I region; other site 1208658000994 G2 box; other site 1208658000995 G3 box; other site 1208658000996 Switch II region; other site 1208658000997 G4 box; other site 1208658000998 G5 box; other site 1208658000999 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1208658001000 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1208658001001 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1208658001002 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 1208658001003 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1208658001004 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1208658001005 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1208658001006 substrate binding pocket [chemical binding]; other site 1208658001007 chain length determination region; other site 1208658001008 substrate-Mg2+ binding site; other site 1208658001009 catalytic residues [active] 1208658001010 aspartate-rich region 1; other site 1208658001011 active site lid residues [active] 1208658001012 aspartate-rich region 2; other site 1208658001013 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658001014 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 1208658001015 dimerization interface [polypeptide binding]; other site 1208658001016 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1208658001017 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1208658001018 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1208658001019 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1208658001020 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1208658001021 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208658001022 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1208658001023 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001024 succinic semialdehyde dehydrogenase; Region: PLN02278 1208658001025 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1208658001026 tetramerization interface [polypeptide binding]; other site 1208658001027 NAD(P) binding site [chemical binding]; other site 1208658001028 catalytic residues [active] 1208658001029 RTX toxin acyltransferase family; Region: HlyC; pfam02794 1208658001030 Anthrax toxin LF subunit; Region: Anthrax_toxA; pfam03497 1208658001031 RTX N-terminal domain; Region: RTX; pfam02382 1208658001032 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1208658001034 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1208658001035 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1208658001036 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208658001037 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1208658001038 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658001039 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658001040 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 1208658001041 dimerization interface [polypeptide binding]; other site 1208658001042 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 1208658001043 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1208658001044 substrate binding pocket [chemical binding]; other site 1208658001045 membrane-bound complex binding site; other site 1208658001046 hinge residues; other site 1208658001047 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658001048 dimer interface [polypeptide binding]; other site 1208658001049 conserved gate region; other site 1208658001050 putative PBP binding loops; other site 1208658001051 ABC-ATPase subunit interface; other site 1208658001052 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208658001053 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658001054 putative PBP binding loops; other site 1208658001055 ABC-ATPase subunit interface; other site 1208658001056 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208658001057 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208658001058 Walker A/P-loop; other site 1208658001059 ATP binding site [chemical binding]; other site 1208658001060 Q-loop/lid; other site 1208658001061 ABC transporter signature motif; other site 1208658001062 Walker B; other site 1208658001063 D-loop; other site 1208658001064 H-loop/switch region; other site 1208658001065 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1208658001066 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 1208658001067 homodimer interface [polypeptide binding]; other site 1208658001068 substrate-cofactor binding pocket; other site 1208658001069 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658001070 catalytic residue [active] 1208658001071 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001072 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 1208658001073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658001074 NAD(P) binding site [chemical binding]; other site 1208658001075 active site 1208658001076 acetolactate synthase catalytic subunit; Validated; Region: PRK06112 1208658001077 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208658001078 PYR/PP interface [polypeptide binding]; other site 1208658001079 dimer interface [polypeptide binding]; other site 1208658001080 TPP binding site [chemical binding]; other site 1208658001081 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208658001082 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 1208658001083 TPP-binding site [chemical binding]; other site 1208658001084 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658001085 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658001086 DNA-binding site [nucleotide binding]; DNA binding site 1208658001087 FCD domain; Region: FCD; pfam07729 1208658001088 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658001089 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658001090 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658001091 DNA-binding site [nucleotide binding]; DNA binding site 1208658001092 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1208658001093 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1208658001094 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1208658001095 NAD(P) binding site [chemical binding]; other site 1208658001096 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1208658001097 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658001098 acyl-activating enzyme (AAE) consensus motif; other site 1208658001099 AMP binding site [chemical binding]; other site 1208658001100 active site 1208658001101 CoA binding site [chemical binding]; other site 1208658001102 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 1208658001103 putative active site [active] 1208658001104 Zn binding site [ion binding]; other site 1208658001105 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208658001106 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658001107 dimer interface [polypeptide binding]; other site 1208658001108 conserved gate region; other site 1208658001109 putative PBP binding loops; other site 1208658001110 ABC-ATPase subunit interface; other site 1208658001111 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208658001112 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208658001113 Walker A/P-loop; other site 1208658001114 ATP binding site [chemical binding]; other site 1208658001115 Q-loop/lid; other site 1208658001116 ABC transporter signature motif; other site 1208658001117 Walker B; other site 1208658001118 D-loop; other site 1208658001119 H-loop/switch region; other site 1208658001120 NMT1/THI5 like; Region: NMT1; pfam09084 1208658001121 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1208658001122 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1208658001123 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1208658001124 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208658001125 PYR/PP interface [polypeptide binding]; other site 1208658001126 dimer interface [polypeptide binding]; other site 1208658001127 TPP binding site [chemical binding]; other site 1208658001128 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208658001129 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 1208658001130 TPP-binding site [chemical binding]; other site 1208658001131 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1208658001132 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1208658001133 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 1208658001134 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658001135 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 1208658001136 putative dimerization interface [polypeptide binding]; other site 1208658001137 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658001138 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658001139 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1208658001140 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208658001141 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658001142 DNA-binding site [nucleotide binding]; DNA binding site 1208658001143 UTRA domain; Region: UTRA; pfam07702 1208658001144 Fumarase C-terminus; Region: Fumerase_C; cl00795 1208658001145 fumarate hydratase; Provisional; Region: PRK06246 1208658001146 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001147 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001148 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1208658001149 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1208658001150 active site 1208658001151 metal binding site [ion binding]; metal-binding site 1208658001152 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658001153 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1208658001154 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658001155 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1208658001156 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1208658001157 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658001158 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658001159 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1208658001160 dimerization interface [polypeptide binding]; other site 1208658001161 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658001162 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 1208658001163 substrate binding site [chemical binding]; other site 1208658001164 oxyanion hole (OAH) forming residues; other site 1208658001165 trimer interface [polypeptide binding]; other site 1208658001166 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 1208658001167 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1208658001168 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208658001169 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 1208658001170 putative ligand binding site [chemical binding]; other site 1208658001171 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 1208658001172 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658001173 TM-ABC transporter signature motif; other site 1208658001174 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658001175 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 1208658001176 TM-ABC transporter signature motif; other site 1208658001177 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658001178 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658001179 Walker A/P-loop; other site 1208658001180 ATP binding site [chemical binding]; other site 1208658001181 Q-loop/lid; other site 1208658001182 ABC transporter signature motif; other site 1208658001183 Walker B; other site 1208658001184 D-loop; other site 1208658001185 H-loop/switch region; other site 1208658001186 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658001187 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658001188 Walker A/P-loop; other site 1208658001189 ATP binding site [chemical binding]; other site 1208658001190 Q-loop/lid; other site 1208658001191 ABC transporter signature motif; other site 1208658001192 Walker B; other site 1208658001193 D-loop; other site 1208658001194 H-loop/switch region; other site 1208658001195 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1208658001196 classical (c) SDRs; Region: SDR_c; cd05233 1208658001197 NAD(P) binding site [chemical binding]; other site 1208658001198 active site 1208658001199 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 1208658001200 short chain dehydrogenase; Provisional; Region: PRK06125 1208658001201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658001202 NAD(P) binding site [chemical binding]; other site 1208658001203 active site 1208658001204 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1208658001205 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 1208658001206 active site 1208658001207 FMN binding site [chemical binding]; other site 1208658001208 substrate binding site [chemical binding]; other site 1208658001209 homotetramer interface [polypeptide binding]; other site 1208658001210 catalytic residue [active] 1208658001211 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1208658001212 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 1208658001213 putative active site [active] 1208658001214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1208658001215 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1208658001216 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 1208658001217 dimerization interface [polypeptide binding]; other site 1208658001218 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 1208658001219 dimer interface [polypeptide binding]; other site 1208658001220 phosphorylation site [posttranslational modification] 1208658001221 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 1208658001222 ATP binding site [chemical binding]; other site 1208658001223 Mg2+ binding site [ion binding]; other site 1208658001224 G-X-G motif; other site 1208658001225 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208658001226 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 1208658001227 active site 1208658001228 phosphorylation site [posttranslational modification] 1208658001229 intermolecular recognition site; other site 1208658001230 dimerization interface [polypeptide binding]; other site 1208658001231 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 1208658001232 DNA binding site [nucleotide binding] 1208658001233 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 1208658001234 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1208658001235 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1208658001236 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1208658001237 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1208658001238 tRNA; other site 1208658001239 putative tRNA binding site [nucleotide binding]; other site 1208658001240 putative NADP binding site [chemical binding]; other site 1208658001241 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1208658001242 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1208658001243 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1208658001244 RF-1 domain; Region: RF-1; pfam00472 1208658001245 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1208658001246 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 1208658001247 S-adenosylmethionine binding site [chemical binding]; other site 1208658001248 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 1208658001249 putative GSH binding site [chemical binding]; other site 1208658001250 catalytic residues [active] 1208658001251 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1208658001252 Flavoprotein; Region: Flavoprotein; pfam02441 1208658001253 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001254 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1208658001255 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1208658001256 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1208658001257 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1208658001258 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 1208658001259 catalytic loop [active] 1208658001260 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1208658001261 iron binding site [ion binding]; other site 1208658001262 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1208658001263 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1208658001264 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1208658001265 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1208658001266 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 1208658001267 putative hydrophobic ligand binding site [chemical binding]; other site 1208658001268 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1208658001269 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1208658001270 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 1208658001271 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1208658001272 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1208658001273 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1208658001274 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1208658001275 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658001276 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658001277 Walker A/P-loop; other site 1208658001278 ATP binding site [chemical binding]; other site 1208658001279 Q-loop/lid; other site 1208658001280 ABC transporter signature motif; other site 1208658001281 Walker B; other site 1208658001282 D-loop; other site 1208658001283 H-loop/switch region; other site 1208658001284 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658001285 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658001286 Walker A/P-loop; other site 1208658001287 ATP binding site [chemical binding]; other site 1208658001288 Q-loop/lid; other site 1208658001289 ABC transporter signature motif; other site 1208658001290 Walker B; other site 1208658001291 D-loop; other site 1208658001292 H-loop/switch region; other site 1208658001293 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 1208658001294 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658001295 TM-ABC transporter signature motif; other site 1208658001296 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658001297 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 1208658001298 TM-ABC transporter signature motif; other site 1208658001299 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1208658001300 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658001301 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 1208658001302 putative dimerization interface [polypeptide binding]; other site 1208658001303 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208658001304 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 1208658001305 putative ligand binding site [chemical binding]; other site 1208658001306 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208658001307 Amidase; Region: Amidase; pfam01425 1208658001308 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 1208658001309 active site clefts [active] 1208658001310 zinc binding site [ion binding]; other site 1208658001311 dimer interface [polypeptide binding]; other site 1208658001312 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 1208658001313 psiF repeat; Region: PsiF_repeat; pfam07769 1208658001314 psiF repeat; Region: PsiF_repeat; pfam07769 1208658001315 Putative cyclase; Region: Cyclase; pfam04199 1208658001316 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1208658001317 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1208658001318 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1208658001319 YciI-like protein; Reviewed; Region: PRK12863 1208658001320 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 1208658001321 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1208658001322 Coenzyme A transferase; Region: CoA_trans; cl17247 1208658001323 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1208658001324 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658001325 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658001326 short chain dehydrogenase; Provisional; Region: PRK07577 1208658001327 classical (c) SDRs; Region: SDR_c; cd05233 1208658001328 NAD(P) binding site [chemical binding]; other site 1208658001329 active site 1208658001331 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK06130 1208658001332 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1208658001333 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208658001334 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1208658001335 catalytic triad [active] 1208658001336 putative active site [active] 1208658001337 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1208658001338 catalytic residues [active] 1208658001339 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208658001340 Autotransporter beta-domain; Region: Autotransporter; smart00869 1208658001341 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1208658001342 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1208658001343 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 1208658001344 Ligand Binding Site [chemical binding]; other site 1208658001345 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1208658001346 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1208658001347 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 1208658001348 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 1208658001349 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1208658001350 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1208658001351 NAD binding site [chemical binding]; other site 1208658001352 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1208658001353 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 1208658001355 Cupin domain; Region: Cupin_2; pfam07883 1208658001356 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1208658001357 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208658001358 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1208658001359 active site 1208658001360 catalytic residues [active] 1208658001361 metal binding site [ion binding]; metal-binding site 1208658001362 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1208658001363 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1208658001364 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208658001365 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1208658001366 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1208658001367 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 1208658001368 putative substrate translocation pore; other site 1208658001369 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658001370 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658001371 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 1208658001372 dimerization interface [polypeptide binding]; other site 1208658001373 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 1208658001374 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 1208658001375 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 1208658001376 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1208658001377 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1208658001378 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1208658001379 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1208658001380 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1208658001381 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1208658001382 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208658001383 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658001384 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658001385 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 1208658001386 putative effector binding pocket; other site 1208658001387 putative dimerization interface [polypeptide binding]; other site 1208658001388 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1208658001389 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1208658001390 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1208658001391 voltage-gated potassium channel; Provisional; Region: PRK10537 1208658001392 Ion channel; Region: Ion_trans_2; pfam07885 1208658001393 TrkA-N domain; Region: TrkA_N; pfam02254 1208658001394 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 1208658001395 homotrimer interaction site [polypeptide binding]; other site 1208658001396 putative active site [active] 1208658001397 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 1208658001398 GSH binding site (G-site) [chemical binding]; other site 1208658001399 C-terminal domain interface [polypeptide binding]; other site 1208658001400 dimer interface [polypeptide binding]; other site 1208658001401 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 1208658001402 dimer interface [polypeptide binding]; other site 1208658001403 N-terminal domain interface [polypeptide binding]; other site 1208658001404 substrate binding pocket (H-site) [chemical binding]; other site 1208658001405 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1208658001406 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1208658001407 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1208658001408 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1208658001409 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 1208658001410 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1208658001411 dimer interface [polypeptide binding]; other site 1208658001412 active site 1208658001413 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1208658001414 substrate binding site [chemical binding]; other site 1208658001415 catalytic residue [active] 1208658001416 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1208658001417 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 1208658001418 motif II; other site 1208658001419 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658001420 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 1208658001421 putative effector binding pocket; other site 1208658001422 putative dimerization interface [polypeptide binding]; other site 1208658001423 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1208658001424 Predicted small secreted protein [Function unknown]; Region: COG5510 1208658001425 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208658001426 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208658001427 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208658001428 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208658001429 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208658001430 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208658001431 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208658001432 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208658001433 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208658001434 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208658001435 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 1208658001436 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208658001437 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658001438 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 1208658001439 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001440 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1208658001441 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658001442 acyl-activating enzyme (AAE) consensus motif; other site 1208658001443 AMP binding site [chemical binding]; other site 1208658001444 active site 1208658001445 CoA binding site [chemical binding]; other site 1208658001446 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658001447 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658001448 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658001449 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658001450 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 1208658001451 substrate binding site [chemical binding]; other site 1208658001452 oxyanion hole (OAH) forming residues; other site 1208658001453 trimer interface [polypeptide binding]; other site 1208658001454 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1208658001455 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001456 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1208658001457 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1208658001458 NADP binding site [chemical binding]; other site 1208658001459 dimer interface [polypeptide binding]; other site 1208658001460 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658001461 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658001462 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658001463 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658001464 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1208658001465 putative dimerization interface [polypeptide binding]; other site 1208658001466 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 1208658001467 putative active site [active] 1208658001468 putative catalytic site [active] 1208658001469 mesaconyl-CoA isomerase; Region: mesacon_CoA_iso; TIGR04253 1208658001470 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658001471 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001472 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1208658001473 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 1208658001474 molybdopterin cofactor binding site; other site 1208658001475 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 1208658001476 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1208658001477 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 1208658001478 putative molybdopterin cofactor binding site; other site 1208658001479 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 1208658001480 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1208658001481 FAD binding pocket [chemical binding]; other site 1208658001482 FAD binding motif [chemical binding]; other site 1208658001483 phosphate binding motif [ion binding]; other site 1208658001484 beta-alpha-beta structure motif; other site 1208658001485 NAD binding pocket [chemical binding]; other site 1208658001486 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 1208658001487 catalytic loop [active] 1208658001488 iron binding site [ion binding]; other site 1208658001489 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1208658001490 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658001491 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658001492 DNA-binding site [nucleotide binding]; DNA binding site 1208658001493 FCD domain; Region: FCD; pfam07729 1208658001494 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 1208658001495 DNA-binding site [nucleotide binding]; DNA binding site 1208658001496 RNA-binding motif; other site 1208658001497 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658001498 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658001499 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 1208658001500 putative dimerization interface [polypeptide binding]; other site 1208658001501 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001502 Sulfatase; Region: Sulfatase; cl17466 1208658001503 choline-sulfatase; Region: chol_sulfatase; TIGR03417 1208658001504 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 1208658001505 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001506 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1208658001507 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 1208658001508 homodimer interface [polypeptide binding]; other site 1208658001509 active site 1208658001510 TDP-binding site; other site 1208658001511 acceptor substrate-binding pocket; other site 1208658001512 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658001513 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658001514 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 1208658001515 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 1208658001516 cofactor binding site; other site 1208658001517 DNA binding site [nucleotide binding] 1208658001518 substrate interaction site [chemical binding]; other site 1208658001519 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 1208658001521 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 1208658001522 FIC domain binding interface [polypeptide binding]; other site 1208658001527 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1208658001528 AAA domain; Region: AAA_13; pfam13166 1208658001530 heat shock protein 90; Provisional; Region: PRK05218 1208658001531 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 1208658001532 ATP binding site [chemical binding]; other site 1208658001533 Mg2+ binding site [ion binding]; other site 1208658001534 G-X-G motif; other site 1208658001535 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1208658001536 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 1208658001537 putative C-terminal domain interface [polypeptide binding]; other site 1208658001538 putative GSH binding site (G-site) [chemical binding]; other site 1208658001539 putative dimer interface [polypeptide binding]; other site 1208658001540 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1208658001541 putative N-terminal domain interface [polypeptide binding]; other site 1208658001542 putative dimer interface [polypeptide binding]; other site 1208658001543 putative substrate binding pocket (H-site) [chemical binding]; other site 1208658001544 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1208658001545 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 1208658001546 amidase catalytic site [active] 1208658001547 Zn binding residues [ion binding]; other site 1208658001548 substrate binding site [chemical binding]; other site 1208658001549 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1208658001550 signal recognition particle protein; Provisional; Region: PRK10867 1208658001551 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1208658001552 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 1208658001553 GTP binding site [chemical binding]; other site 1208658001554 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1208658001555 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1208658001556 BON domain; Region: BON; pfam04972 1208658001557 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1208658001558 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1208658001559 thiS-thiF/thiG interaction site; other site 1208658001560 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1208658001562 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658001563 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658001564 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 1208658001565 putative dimerization interface [polypeptide binding]; other site 1208658001566 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658001567 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658001568 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1208658001569 active site 1208658001570 catalytic residues [active] 1208658001571 metal binding site [ion binding]; metal-binding site 1208658001572 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001573 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1208658001574 NACHT domain; Region: NACHT; pfam05729 1208658001575 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 1208658001577 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658001578 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 1208658001579 putative DNA binding site [nucleotide binding]; other site 1208658001580 putative Zn2+ binding site [ion binding]; other site 1208658001581 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658001582 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 1208658001583 [2Fe-2S] cluster binding site [ion binding]; other site 1208658001584 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1208658001585 alpha subunit interface [polypeptide binding]; other site 1208658001586 active site 1208658001587 substrate binding site [chemical binding]; other site 1208658001588 Fe binding site [ion binding]; other site 1208658001589 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 1208658001590 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658001591 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208658001592 DctM-like transporters; Region: DctM; pfam06808 1208658001593 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208658001594 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 1208658001595 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1208658001596 catalytic loop [active] 1208658001597 iron binding site [ion binding]; other site 1208658001598 Toluene-4-monoxygenase electron transfer component of Pseudomonas mendocina hydroxylates toluene and forms p-cresol as part of a three component toluene-4-monoxygenase system. Electron transfer is from NADH to an NADH:ferredoxin oxidoreductase (TmoF in P; Region: T4MO_e_transfer_like; cd06190 1208658001599 FAD binding pocket [chemical binding]; other site 1208658001600 FAD binding motif [chemical binding]; other site 1208658001601 phosphate binding motif [ion binding]; other site 1208658001602 beta-alpha-beta structure motif; other site 1208658001603 NAD binding pocket [chemical binding]; other site 1208658001604 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 1208658001605 iron-sulfur cluster [ion binding]; other site 1208658001606 [2Fe-2S] cluster binding site [ion binding]; other site 1208658001607 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1208658001608 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1208658001609 conserved cys residue [active] 1208658001610 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001611 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658001612 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658001613 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 1208658001614 dimerization interface [polypeptide binding]; other site 1208658001615 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001616 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1208658001617 CoA binding domain; Region: CoA_binding_2; pfam13380 1208658001618 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1208658001619 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1208658001620 enoyl-CoA hydratase; Provisional; Region: PRK08252 1208658001621 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 1208658001622 substrate binding site [chemical binding]; other site 1208658001623 oxyanion hole (OAH) forming residues; other site 1208658001624 trimer interface [polypeptide binding]; other site 1208658001625 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001626 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1208658001627 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001628 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 1208658001629 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 1208658001630 active site residue [active] 1208658001631 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 1208658001632 active site residue [active] 1208658001633 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 1208658001634 active site residue [active] 1208658001635 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1208658001636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658001637 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 1208658001638 putative dimerization interface [polypeptide binding]; other site 1208658001639 hypothetical protein; Provisional; Region: PRK06154 1208658001640 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208658001641 PYR/PP interface [polypeptide binding]; other site 1208658001642 dimer interface [polypeptide binding]; other site 1208658001643 TPP binding site [chemical binding]; other site 1208658001644 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208658001645 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 1208658001646 TPP-binding site; other site 1208658001647 dimer interface [polypeptide binding]; other site 1208658001648 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658001649 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658001650 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658001651 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 1208658001652 substrate binding site [chemical binding]; other site 1208658001653 oxyanion hole (OAH) forming residues; other site 1208658001654 trimer interface [polypeptide binding]; other site 1208658001655 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001656 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658001657 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 1208658001658 putative DNA binding site [nucleotide binding]; other site 1208658001659 putative Zn2+ binding site [ion binding]; other site 1208658001660 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001661 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1208658001662 DUF35 OB-fold domain; Region: DUF35; pfam01796 1208658001663 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 1208658001664 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1208658001665 active site 1208658001666 acyl-CoA synthetase; Validated; Region: PRK06188 1208658001667 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658001668 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1208658001669 acyl-activating enzyme (AAE) consensus motif; other site 1208658001670 acyl-activating enzyme (AAE) consensus motif; other site 1208658001671 putative AMP binding site [chemical binding]; other site 1208658001672 putative active site [active] 1208658001673 putative CoA binding site [chemical binding]; other site 1208658001674 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1208658001675 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1208658001676 DNA binding site [nucleotide binding] 1208658001677 domain linker motif; other site 1208658001678 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_5; cd06281 1208658001679 putative dimerization interface [polypeptide binding]; other site 1208658001680 putative ligand binding site [chemical binding]; other site 1208658001681 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1208658001682 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1208658001683 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1208658001684 NAD(P) binding site [chemical binding]; other site 1208658001685 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 1208658001686 tetramer interface [polypeptide binding]; other site 1208658001687 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1208658001688 active site 1208658001689 Mg2+/Mn2+ binding site [ion binding]; other site 1208658001690 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1208658001691 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1208658001692 active site 1208658001693 NAD binding site [chemical binding]; other site 1208658001694 metal binding site [ion binding]; metal-binding site 1208658001695 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658001696 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658001697 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658001698 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658001699 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001700 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658001701 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658001702 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1208658001703 putative dimerization interface [polypeptide binding]; other site 1208658001704 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001705 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658001706 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658001707 active site 1208658001708 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1208658001709 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001710 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 1208658001711 substrate binding site [chemical binding]; other site 1208658001712 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1208658001713 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1208658001714 substrate binding site [chemical binding]; other site 1208658001715 ligand binding site [chemical binding]; other site 1208658001716 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658001717 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658001718 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1208658001719 putative dimerization interface [polypeptide binding]; other site 1208658001720 tricarballylate dehydrogenase; Validated; Region: PRK08274 1208658001721 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1208658001722 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1208658001723 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1208658001724 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1208658001725 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658001726 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658001727 Walker A/P-loop; other site 1208658001728 ATP binding site [chemical binding]; other site 1208658001729 Q-loop/lid; other site 1208658001730 ABC transporter signature motif; other site 1208658001731 Walker B; other site 1208658001732 D-loop; other site 1208658001733 H-loop/switch region; other site 1208658001734 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658001735 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658001736 Walker A/P-loop; other site 1208658001737 ATP binding site [chemical binding]; other site 1208658001738 Q-loop/lid; other site 1208658001739 ABC transporter signature motif; other site 1208658001740 Walker B; other site 1208658001741 D-loop; other site 1208658001742 H-loop/switch region; other site 1208658001743 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 1208658001744 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658001745 TM-ABC transporter signature motif; other site 1208658001746 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 1208658001747 TM-ABC transporter signature motif; other site 1208658001748 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208658001749 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1208658001750 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658001751 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658001752 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 1208658001753 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1208658001754 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 1208658001755 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1208658001756 active site 1208658001757 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1208658001758 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase; Region: benzo_BadH; TIGR03206 1208658001759 classical (c) SDRs; Region: SDR_c; cd05233 1208658001760 NAD(P) binding site [chemical binding]; other site 1208658001761 active site 1208658001762 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658001763 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658001764 active site 1208658001765 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208658001766 classical (c) SDRs; Region: SDR_c; cd05233 1208658001767 NAD(P) binding site [chemical binding]; other site 1208658001768 active site 1208658001769 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 1208658001770 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658001771 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 1208658001772 acyl-activating enzyme (AAE) consensus motif; other site 1208658001773 putative AMP binding site [chemical binding]; other site 1208658001774 putative active site [active] 1208658001775 putative CoA binding site [chemical binding]; other site 1208658001776 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658001777 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 1208658001778 substrate binding site [chemical binding]; other site 1208658001779 oxyanion hole (OAH) forming residues; other site 1208658001780 trimer interface [polypeptide binding]; other site 1208658001781 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658001782 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658001783 active site 1208658001784 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001786 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1208658001787 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 1208658001788 putative active site [active] 1208658001789 putative catalytic site [active] 1208658001790 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658001791 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658001792 active site 1208658001793 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658001794 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658001795 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658001796 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658001797 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001798 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 1208658001799 SnoaL-like domain; Region: SnoaL_3; pfam13474 1208658001800 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1208658001801 putative FMN binding site [chemical binding]; other site 1208658001802 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658001803 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 1208658001804 substrate binding site [chemical binding]; other site 1208658001805 oxyanion hole (OAH) forming residues; other site 1208658001806 trimer interface [polypeptide binding]; other site 1208658001807 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208658001808 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 1208658001809 putative ligand binding site [chemical binding]; other site 1208658001810 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 1208658001811 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658001812 TM-ABC transporter signature motif; other site 1208658001813 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658001814 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 1208658001815 TM-ABC transporter signature motif; other site 1208658001816 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658001817 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658001818 Walker A/P-loop; other site 1208658001819 ATP binding site [chemical binding]; other site 1208658001820 Q-loop/lid; other site 1208658001821 ABC transporter signature motif; other site 1208658001822 Walker B; other site 1208658001823 D-loop; other site 1208658001824 H-loop/switch region; other site 1208658001825 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658001826 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658001827 Walker A/P-loop; other site 1208658001828 ATP binding site [chemical binding]; other site 1208658001829 Q-loop/lid; other site 1208658001830 ABC transporter signature motif; other site 1208658001831 Walker B; other site 1208658001832 D-loop; other site 1208658001833 H-loop/switch region; other site 1208658001834 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1208658001835 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 1208658001836 putative active site [active] 1208658001837 putative FMN binding site [chemical binding]; other site 1208658001838 putative substrate binding site [chemical binding]; other site 1208658001839 putative catalytic residue [active] 1208658001840 short chain dehydrogenase; Provisional; Region: PRK06125 1208658001841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658001842 NAD(P) binding site [chemical binding]; other site 1208658001843 active site 1208658001844 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001845 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1208658001846 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 1208658001847 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1208658001848 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1208658001849 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1208658001850 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658001851 acyl-activating enzyme (AAE) consensus motif; other site 1208658001852 AMP binding site [chemical binding]; other site 1208658001853 active site 1208658001854 CoA binding site [chemical binding]; other site 1208658001855 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658001856 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1208658001857 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658001858 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658001859 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1208658001860 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658001861 pyruvate carboxylase; Reviewed; Region: PRK12999 1208658001862 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1208658001863 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208658001864 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1208658001865 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1208658001866 active site 1208658001867 catalytic residues [active] 1208658001868 metal binding site [ion binding]; metal-binding site 1208658001869 homodimer binding site [polypeptide binding]; other site 1208658001870 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 1208658001871 carboxyltransferase (CT) interaction site; other site 1208658001872 biotinylation site [posttranslational modification]; other site 1208658001873 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658001874 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658001875 active site 1208658001876 enoyl-CoA hydratase; Region: PLN02864 1208658001877 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 1208658001878 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 1208658001879 dimer interaction site [polypeptide binding]; other site 1208658001880 substrate-binding tunnel; other site 1208658001881 active site 1208658001882 catalytic site [active] 1208658001883 substrate binding site [chemical binding]; other site 1208658001884 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1208658001885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658001886 NAD(P) binding site [chemical binding]; other site 1208658001887 active site 1208658001888 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 1208658001889 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 1208658001890 dimer interface [polypeptide binding]; other site 1208658001891 active site 1208658001892 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 1208658001893 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1208658001894 Uncharacterized acyl-CoA synthetase subfamily similar to Acetoacetyl-CoA synthetase; Region: AACS_like; cd05968 1208658001895 acyl-activating enzyme (AAE) consensus motif; other site 1208658001896 putative AMP binding site [chemical binding]; other site 1208658001897 putative active site [active] 1208658001898 putative CoA binding site [chemical binding]; other site 1208658001899 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208658001900 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658001901 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658001902 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658001903 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658001904 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658001905 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658001906 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 1208658001907 putative dimerization interface [polypeptide binding]; other site 1208658001908 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658001909 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1208658001910 active site 1208658001911 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 1208658001912 Ligand binding site [chemical binding]; other site 1208658001913 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1208658001914 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 1208658001915 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 1208658001916 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1208658001917 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1208658001918 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 1208658001919 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 1208658001920 active site 2 [active] 1208658001921 active site 1 [active] 1208658001922 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1208658001923 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1208658001924 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658001925 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658001926 The C-terminal substrate binding of LysR-type symbiotic regulator SyrM, which activates expression of nodulation gene NodD3, contains the type 2 periplasmic binding fold; Region: PBP2_SyrM; cd08467 1208658001927 putative substrate binding pocket [chemical binding]; other site 1208658001928 putative dimerization interface [polypeptide binding]; other site 1208658001929 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1208658001930 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001931 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001932 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658001933 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658001934 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1208658001935 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658001936 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 1208658001937 substrate binding site [chemical binding]; other site 1208658001938 oxyanion hole (OAH) forming residues; other site 1208658001939 trimer interface [polypeptide binding]; other site 1208658001940 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1208658001941 putative FMN binding site [chemical binding]; other site 1208658001942 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658001943 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658001944 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1208658001945 active site 1208658001946 metal binding site [ion binding]; metal-binding site 1208658001947 enoyl-CoA hydratase; Provisional; Region: PRK08252 1208658001948 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 1208658001949 substrate binding site [chemical binding]; other site 1208658001950 oxyanion hole (OAH) forming residues; other site 1208658001951 trimer interface [polypeptide binding]; other site 1208658001952 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658001953 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658001954 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658001955 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1208658001956 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1208658001957 active site 1208658001958 NAD binding site [chemical binding]; other site 1208658001959 metal binding site [ion binding]; metal-binding site 1208658001960 enoyl-CoA hydratase; Provisional; Region: PRK06688 1208658001961 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 1208658001962 substrate binding site [chemical binding]; other site 1208658001963 oxyanion hole (OAH) forming residues; other site 1208658001964 trimer interface [polypeptide binding]; other site 1208658001965 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208658001966 Amidase; Region: Amidase; cl11426 1208658001967 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1208658001968 NAD(P)+ dependent aldehyde dehydrogenase family; Region: ALDH; cd07078 1208658001969 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208658001970 NAD(P) binding site [chemical binding]; other site 1208658001971 catalytic residues [active] 1208658001972 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 1208658001973 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1208658001974 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208658001975 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658001976 dimer interface [polypeptide binding]; other site 1208658001977 conserved gate region; other site 1208658001978 putative PBP binding loops; other site 1208658001979 ABC-ATPase subunit interface; other site 1208658001980 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208658001981 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208658001982 Walker A/P-loop; other site 1208658001983 ATP binding site [chemical binding]; other site 1208658001984 Q-loop/lid; other site 1208658001985 ABC transporter signature motif; other site 1208658001986 Walker B; other site 1208658001987 D-loop; other site 1208658001988 H-loop/switch region; other site 1208658001989 NMT1/THI5 like; Region: NMT1; pfam09084 1208658001990 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1208658001991 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1208658001992 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1208658001993 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658001994 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658001995 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658001996 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 1208658001997 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1208658001998 ligand binding site [chemical binding]; other site 1208658001999 flexible hinge region; other site 1208658002000 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 1208658002001 putative switch regulator; other site 1208658002002 non-specific DNA interactions [nucleotide binding]; other site 1208658002003 DNA binding site [nucleotide binding] 1208658002004 sequence specific DNA binding site [nucleotide binding]; other site 1208658002005 putative cAMP binding site [chemical binding]; other site 1208658002006 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208658002007 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658002008 NAD(P) binding site [chemical binding]; other site 1208658002009 active site 1208658002010 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002011 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002012 Domain of unknown function (DUF4392); Region: DUF4392; pfam14336 1208658002013 pyridoxal phosphate enzyme, MJ0158 family; Region: pyridox_MJ0158; TIGR03576 1208658002014 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658002015 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658002016 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_6; cd08423 1208658002017 putative dimerization interface [polypeptide binding]; other site 1208658002018 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658002019 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658002020 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658002021 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658002022 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658002023 active site 1208658002024 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1208658002025 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 1208658002026 acyl-activating enzyme (AAE) consensus motif; other site 1208658002027 putative AMP binding site [chemical binding]; other site 1208658002028 putative active site [active] 1208658002029 putative CoA binding site [chemical binding]; other site 1208658002030 Putative cyclase; Region: Cyclase; cl00814 1208658002031 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 1208658002032 active site 2 [active] 1208658002033 active site 1 [active] 1208658002034 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002035 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658002036 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 1208658002037 substrate binding site [chemical binding]; other site 1208658002038 oxyanion hole (OAH) forming residues; other site 1208658002039 trimer interface [polypeptide binding]; other site 1208658002040 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 1208658002041 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1208658002042 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658002043 FAD binding site [chemical binding]; other site 1208658002044 substrate binding pocket [chemical binding]; other site 1208658002045 catalytic base [active] 1208658002046 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658002047 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 1208658002048 substrate binding site [chemical binding]; other site 1208658002049 oxyanion hole (OAH) forming residues; other site 1208658002050 trimer interface [polypeptide binding]; other site 1208658002051 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1208658002052 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 1208658002053 dimer interface [polypeptide binding]; other site 1208658002054 active site 1208658002055 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002056 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1208658002057 CoA binding domain; Region: CoA_binding_2; pfam13380 1208658002058 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1208658002059 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1208658002060 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208658002061 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658002062 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 1208658002063 dimerization interface [polypeptide binding]; other site 1208658002064 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1208658002065 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1208658002066 Amino acid synthesis; Region: AA_synth; pfam06684 1208658002067 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1208658002068 glutathionine S-transferase; Provisional; Region: PRK10542 1208658002069 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 1208658002070 C-terminal domain interface [polypeptide binding]; other site 1208658002071 GSH binding site (G-site) [chemical binding]; other site 1208658002072 dimer interface [polypeptide binding]; other site 1208658002073 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1208658002074 dimer interface [polypeptide binding]; other site 1208658002075 N-terminal domain interface [polypeptide binding]; other site 1208658002076 substrate binding pocket (H-site) [chemical binding]; other site 1208658002077 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208658002079 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658002080 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658002081 DNA-binding site [nucleotide binding]; DNA binding site 1208658002082 FCD domain; Region: FCD; pfam07729 1208658002083 aldehyde dehydrogenase family 7 member; Region: PLN02315 1208658002084 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1208658002085 NAD(P) binding site [chemical binding]; other site 1208658002086 catalytic residues [active] 1208658002087 cystathionine beta-lyase; Provisional; Region: PRK09028 1208658002088 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 1208658002089 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208658002090 catalytic residue [active] 1208658002091 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 1208658002092 homotrimer interaction site [polypeptide binding]; other site 1208658002093 putative active site [active] 1208658002094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208658002095 Uncharacterized conserved protein [Function unknown]; Region: COG5276 1208658002096 LVIVD repeat; Region: LVIVD; pfam08309 1208658002097 LVIVD repeat; Region: LVIVD; pfam08309 1208658002098 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1208658002099 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 1208658002100 P-loop, Walker A motif; other site 1208658002101 Base recognition motif; other site 1208658002102 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1208658002103 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1208658002104 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 1208658002105 structural tetrad; other site 1208658002106 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658002107 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658002108 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658002109 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1208658002110 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1208658002111 inhibitor site; inhibition site 1208658002112 active site 1208658002113 dimer interface [polypeptide binding]; other site 1208658002114 catalytic residue [active] 1208658002115 aspartate aminotransferase; Provisional; Region: PRK05764 1208658002116 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 1208658002117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658002118 homodimer interface [polypeptide binding]; other site 1208658002119 catalytic residue [active] 1208658002120 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 1208658002121 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1208658002122 substrate binding pocket [chemical binding]; other site 1208658002123 membrane-bound complex binding site; other site 1208658002124 hinge residues; other site 1208658002125 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658002126 dimer interface [polypeptide binding]; other site 1208658002127 conserved gate region; other site 1208658002128 putative PBP binding loops; other site 1208658002129 ABC-ATPase subunit interface; other site 1208658002130 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208658002131 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208658002132 Walker A/P-loop; other site 1208658002133 ATP binding site [chemical binding]; other site 1208658002134 Q-loop/lid; other site 1208658002135 ABC transporter signature motif; other site 1208658002136 Walker B; other site 1208658002137 D-loop; other site 1208658002138 H-loop/switch region; other site 1208658002139 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1208658002140 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1208658002141 metal binding site [ion binding]; metal-binding site 1208658002142 putative dimer interface [polypeptide binding]; other site 1208658002143 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1208658002144 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658002145 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658002147 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208658002148 Amidase; Region: Amidase; cl11426 1208658002149 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1208658002150 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1208658002151 active site 1208658002152 catalytic site [active] 1208658002153 tetramer interface [polypeptide binding]; other site 1208658002154 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1208658002155 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 1208658002156 DctM-like transporters; Region: DctM; pfam06808 1208658002157 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208658002158 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208658002159 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658002160 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658002161 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658002162 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 1208658002163 putative dimerization interface [polypeptide binding]; other site 1208658002164 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658002165 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658002166 FCD domain; Region: FCD; pfam07729 1208658002167 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1208658002168 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1208658002169 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1208658002170 DctM-like transporters; Region: DctM; pfam06808 1208658002171 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658002172 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 1208658002173 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658002174 DNA-binding site [nucleotide binding]; DNA binding site 1208658002175 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 1208658002176 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658002177 homodimer interface [polypeptide binding]; other site 1208658002178 catalytic residue [active] 1208658002179 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 1208658002180 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 1208658002181 dimer interface [polypeptide binding]; other site 1208658002182 active site 1208658002183 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1208658002184 folate binding site [chemical binding]; other site 1208658002185 Benzoate membrane transport protein; Region: BenE; pfam03594 1208658002186 benzoate transporter; Region: benE; TIGR00843 1208658002187 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1208658002188 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1208658002189 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1208658002191 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658002192 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658002193 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1208658002194 putative dimerization interface [polypeptide binding]; other site 1208658002195 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208658002196 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658002197 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658002198 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1208658002199 active site 1208658002200 catalytic residues [active] 1208658002201 metal binding site [ion binding]; metal-binding site 1208658002202 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658002203 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658002204 Isochorismatase family; Region: Isochorismatase; pfam00857 1208658002205 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 1208658002206 catalytic triad [active] 1208658002207 conserved cis-peptide bond; other site 1208658002208 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002210 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658002211 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208658002212 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208658002213 DctM-like transporters; Region: DctM; pfam06808 1208658002214 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1208658002215 Strictosidine synthase; Region: Str_synth; pfam03088 1208658002216 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 1208658002217 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1208658002218 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658002219 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 1208658002220 putative DNA binding site [nucleotide binding]; other site 1208658002221 putative Zn2+ binding site [ion binding]; other site 1208658002222 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658002223 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002224 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 1208658002225 catalytic loop [active] 1208658002226 iron binding site [ion binding]; other site 1208658002227 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1208658002228 FAD binding pocket [chemical binding]; other site 1208658002229 conserved FAD binding motif [chemical binding]; other site 1208658002230 phosphate binding motif [ion binding]; other site 1208658002231 beta-alpha-beta structure motif; other site 1208658002232 NAD binding pocket [chemical binding]; other site 1208658002233 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 1208658002234 iron-sulfur cluster [ion binding]; other site 1208658002235 [2Fe-2S] cluster binding site [ion binding]; other site 1208658002236 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 1208658002237 beta subunit interface [polypeptide binding]; other site 1208658002238 alpha subunit interface [polypeptide binding]; other site 1208658002239 active site 1208658002240 substrate binding site [chemical binding]; other site 1208658002241 Fe binding site [ion binding]; other site 1208658002242 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1208658002243 classical (c) SDRs; Region: SDR_c; cd05233 1208658002244 NAD(P) binding site [chemical binding]; other site 1208658002245 active site 1208658002246 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 1208658002247 inter-subunit interface; other site 1208658002248 hypothetical protein; Provisional; Region: PRK06126 1208658002249 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1208658002250 hypothetical protein; Provisional; Region: PRK07236 1208658002251 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002252 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1208658002253 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 1208658002254 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1208658002255 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 1208658002256 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1208658002257 NAD binding site [chemical binding]; other site 1208658002258 catalytic residues [active] 1208658002259 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 1208658002260 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1208658002261 putative active site [active] 1208658002262 putative metal binding site [ion binding]; other site 1208658002263 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 1208658002264 putative substrate binding pocket [chemical binding]; other site 1208658002265 trimer interface [polypeptide binding]; other site 1208658002266 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 1208658002267 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase; Region: HpaI; TIGR02311 1208658002268 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 1208658002269 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658002270 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 1208658002271 dimerization interface [polypeptide binding]; other site 1208658002272 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002273 hypothetical protein; Provisional; Region: PRK08266 1208658002274 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208658002275 PYR/PP interface [polypeptide binding]; other site 1208658002276 dimer interface [polypeptide binding]; other site 1208658002277 TPP binding site [chemical binding]; other site 1208658002278 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208658002279 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 1208658002280 TPP-binding site [chemical binding]; other site 1208658002281 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1208658002282 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208658002283 NAD(P) binding site [chemical binding]; other site 1208658002284 catalytic residues [active] 1208658002285 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 1208658002286 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1208658002287 substrate binding pocket [chemical binding]; other site 1208658002288 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1208658002289 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1208658002290 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 1208658002291 non-specific DNA binding site [nucleotide binding]; other site 1208658002292 salt bridge; other site 1208658002293 sequence-specific DNA binding site [nucleotide binding]; other site 1208658002294 Cupin domain; Region: Cupin_2; pfam07883 1208658002295 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002296 enoyl-CoA hydratase; Provisional; Region: PRK09245 1208658002297 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 1208658002298 substrate binding site [chemical binding]; other site 1208658002299 oxyanion hole (OAH) forming residues; other site 1208658002300 trimer interface [polypeptide binding]; other site 1208658002301 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658002302 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 1208658002303 NAD(P) binding site [chemical binding]; other site 1208658002304 active site 1208658002305 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658002306 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658002307 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1208658002308 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658002309 acyl-activating enzyme (AAE) consensus motif; other site 1208658002310 AMP binding site [chemical binding]; other site 1208658002311 active site 1208658002312 CoA binding site [chemical binding]; other site 1208658002313 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658002314 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658002315 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658002316 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658002317 active site 1208658002318 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658002319 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 1208658002320 TM-ABC transporter signature motif; other site 1208658002321 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658002322 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 1208658002323 TM-ABC transporter signature motif; other site 1208658002324 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658002325 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658002326 Walker A/P-loop; other site 1208658002327 ATP binding site [chemical binding]; other site 1208658002328 Q-loop/lid; other site 1208658002329 ABC transporter signature motif; other site 1208658002330 Walker B; other site 1208658002331 D-loop; other site 1208658002332 H-loop/switch region; other site 1208658002333 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658002334 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658002335 Walker A/P-loop; other site 1208658002336 ATP binding site [chemical binding]; other site 1208658002337 Q-loop/lid; other site 1208658002338 ABC transporter signature motif; other site 1208658002339 Walker B; other site 1208658002340 D-loop; other site 1208658002341 H-loop/switch region; other site 1208658002342 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208658002343 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1208658002344 ligand binding site [chemical binding]; other site 1208658002345 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658002346 NAD(P) binding site [chemical binding]; other site 1208658002347 active site 1208658002348 enoyl-CoA hydratase; Provisional; Region: PRK08252 1208658002349 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 1208658002350 substrate binding site [chemical binding]; other site 1208658002351 oxyanion hole (OAH) forming residues; other site 1208658002352 trimer interface [polypeptide binding]; other site 1208658002353 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1208658002354 DUF35 OB-fold domain; Region: DUF35; pfam01796 1208658002355 thiolase; Provisional; Region: PRK06158 1208658002356 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1208658002357 active site 1208658002358 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 1208658002359 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 1208658002360 dimer interaction site [polypeptide binding]; other site 1208658002361 substrate-binding tunnel; other site 1208658002362 active site 1208658002363 catalytic site [active] 1208658002364 substrate binding site [chemical binding]; other site 1208658002365 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 1208658002366 NAD(P) binding site [chemical binding]; other site 1208658002367 active site 1208658002368 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002369 Putative cyclase; Region: Cyclase; pfam04199 1208658002370 Putative cyclase; Region: Cyclase; cl00814 1208658002371 Bacterial transcriptional activator domain; Region: BTAD; smart01043 1208658002372 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 1208658002373 AAA ATPase domain; Region: AAA_16; pfam13191 1208658002374 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1208658002375 TPR motif; other site 1208658002376 binding surface 1208658002377 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1208658002378 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1208658002379 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1208658002380 Transforming acidic coiled-coil-containing protein (TACC); Region: TACC; pfam05010 1208658002381 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1208658002382 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1208658002383 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1208658002384 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1208658002385 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1208658002386 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 1208658002387 Walker A motif; other site 1208658002388 ATP binding site [chemical binding]; other site 1208658002389 Walker B motif; other site 1208658002390 AAA domain; Region: AAA_22; pfam13401 1208658002391 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1208658002392 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1208658002393 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1208658002394 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1208658002395 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1208658002396 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 1208658002397 Walker A motif; other site 1208658002398 ATP binding site [chemical binding]; other site 1208658002399 Walker B motif; other site 1208658002400 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1208658002401 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 1208658002402 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1208658002403 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1208658002404 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1208658002405 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1208658002406 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 1208658002407 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1208658002408 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1208658002409 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1208658002410 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1208658002411 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1208658002412 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 1208658002413 HNH/ENDO VII superfamily nuclease with conserved GHE residues; Region: GH-E; pfam14410 1208658002414 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 1208658002415 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1208658002416 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1208658002417 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 1208658002418 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 1208658002419 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1208658002420 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1208658002421 ImpE protein; Region: ImpE; pfam07024 1208658002422 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1208658002423 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1208658002424 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1208658002425 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 1208658002426 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1208658002427 Uncharacterized protein conserved in bacteria (DUF2195); Region: DUF2195; pfam09961 1208658002428 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1208658002429 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 1208658002430 Walker A motif; other site 1208658002431 ATP binding site [chemical binding]; other site 1208658002432 Walker B motif; other site 1208658002433 arginine finger; other site 1208658002434 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 1208658002435 Walker A motif; other site 1208658002436 ATP binding site [chemical binding]; other site 1208658002437 Walker B motif; other site 1208658002438 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1208658002439 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 1208658002440 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1208658002441 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1208658002442 hypothetical protein; Provisional; Region: PRK07033 1208658002443 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1208658002444 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1208658002445 ligand binding site [chemical binding]; other site 1208658002446 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1208658002447 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1208658002448 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1208658002449 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 1208658002450 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 1208658002451 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 1208658002452 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1208658002453 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1208658002454 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1208658002455 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1208658002456 putative active site [active] 1208658002457 catalytic site [active] 1208658002458 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1208658002459 PLD-like domain; Region: PLDc_2; pfam13091 1208658002460 putative active site [active] 1208658002461 catalytic site [active] 1208658002462 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658002463 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 1208658002464 Walker A/P-loop; other site 1208658002465 ATP binding site [chemical binding]; other site 1208658002466 Q-loop/lid; other site 1208658002467 ABC transporter signature motif; other site 1208658002468 Walker B; other site 1208658002469 D-loop; other site 1208658002470 H-loop/switch region; other site 1208658002471 TOBE domain; Region: TOBE; pfam03459 1208658002472 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1208658002473 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658002474 dimer interface [polypeptide binding]; other site 1208658002475 conserved gate region; other site 1208658002476 putative PBP binding loops; other site 1208658002477 ABC-ATPase subunit interface; other site 1208658002478 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1208658002479 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1208658002480 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1208658002481 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1208658002483 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1208658002484 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 1208658002485 N-terminal plug; other site 1208658002486 ligand-binding site [chemical binding]; other site 1208658002487 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208658002488 AsnC family; Region: AsnC_trans_reg; pfam01037 1208658002489 ornithine--oxo-acid transaminase; Reviewed; Region: rocD; PRK00854 1208658002490 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 1208658002491 inhibitor-cofactor binding pocket; inhibition site 1208658002492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658002493 catalytic residue [active] 1208658002494 Arginase family; Region: Arginase; cd09989 1208658002495 active site 1208658002496 Mn binding site [ion binding]; other site 1208658002497 oligomer interface [polypeptide binding]; other site 1208658002498 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208658002499 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 1208658002500 active site 1208658002501 intermolecular recognition site; other site 1208658002502 dimerization interface [polypeptide binding]; other site 1208658002503 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 1208658002504 DNA binding site [nucleotide binding] 1208658002505 META domain; Region: META; pfam03724 1208658002506 META domain; Region: META; pfam03724 1208658002507 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 1208658002508 rhodanese superfamily protein; Provisional; Region: PRK05320 1208658002509 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1208658002510 active site residue [active] 1208658002511 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1208658002512 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1208658002513 active site 1208658002514 HIGH motif; other site 1208658002515 KMSKS motif; other site 1208658002516 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1208658002517 tRNA binding surface [nucleotide binding]; other site 1208658002518 anticodon binding site; other site 1208658002519 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 1208658002520 dimer interface [polypeptide binding]; other site 1208658002521 putative tRNA-binding site [nucleotide binding]; other site 1208658002522 Domain of unknown function DUF59; Region: DUF59; cl00941 1208658002523 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 1208658002524 Walker A motif; other site 1208658002525 Surface antigen; Region: Bac_surface_Ag; pfam01103 1208658002526 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1208658002527 Family of unknown function (DUF490); Region: DUF490; pfam04357 1208658002528 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1208658002529 trimer interface [polypeptide binding]; other site 1208658002530 active site 1208658002531 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_14; cd08355 1208658002532 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208658002533 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1208658002534 active site 1208658002535 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1208658002536 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1208658002537 Coenzyme A binding pocket [chemical binding]; other site 1208658002538 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1208658002539 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1208658002540 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 1208658002541 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208658002542 catalytic residue [active] 1208658002543 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1208658002544 HI0933-like protein; Region: HI0933_like; pfam03486 1208658002545 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1208658002546 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1208658002547 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1208658002548 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1208658002549 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1208658002550 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1208658002551 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 1208658002552 lipoyl attachment site [posttranslational modification]; other site 1208658002553 glycine dehydrogenase; Provisional; Region: PRK05367 1208658002554 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 1208658002555 tetramer interface [polypeptide binding]; other site 1208658002556 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658002557 catalytic residue [active] 1208658002558 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 1208658002559 tetramer interface [polypeptide binding]; other site 1208658002560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658002561 catalytic residue [active] 1208658002562 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1208658002563 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1208658002564 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1208658002565 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1208658002566 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658002567 DNA-binding site [nucleotide binding]; DNA binding site 1208658002568 FCD domain; Region: FCD; pfam07729 1208658002569 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658002570 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658002571 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1208658002572 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002573 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658002574 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 1208658002575 substrate binding site [chemical binding]; other site 1208658002576 oxyanion hole (OAH) forming residues; other site 1208658002577 trimer interface [polypeptide binding]; other site 1208658002578 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1208658002579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1208658002580 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1208658002581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1208658002582 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1208658002583 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1208658002584 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1208658002585 MlrC C-terminus; Region: MlrC_C; pfam07171 1208658002586 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1208658002587 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658002588 Walker A/P-loop; other site 1208658002589 ATP binding site [chemical binding]; other site 1208658002590 Q-loop/lid; other site 1208658002591 ABC transporter signature motif; other site 1208658002592 Walker B; other site 1208658002593 D-loop; other site 1208658002594 H-loop/switch region; other site 1208658002595 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658002596 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658002597 Walker A/P-loop; other site 1208658002598 ATP binding site [chemical binding]; other site 1208658002599 Q-loop/lid; other site 1208658002600 ABC transporter signature motif; other site 1208658002601 Walker B; other site 1208658002602 D-loop; other site 1208658002603 H-loop/switch region; other site 1208658002604 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658002605 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1208658002606 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658002607 dimer interface [polypeptide binding]; other site 1208658002608 conserved gate region; other site 1208658002609 putative PBP binding loops; other site 1208658002610 ABC-ATPase subunit interface; other site 1208658002611 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208658002612 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658002613 dimer interface [polypeptide binding]; other site 1208658002614 conserved gate region; other site 1208658002615 putative PBP binding loops; other site 1208658002616 ABC-ATPase subunit interface; other site 1208658002617 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 1208658002618 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1208658002619 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1208658002620 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1208658002621 tetrameric interface [polypeptide binding]; other site 1208658002622 NAD binding site [chemical binding]; other site 1208658002623 catalytic residues [active] 1208658002624 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1208658002625 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 1208658002626 inhibitor-cofactor binding pocket; inhibition site 1208658002627 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658002628 catalytic residue [active] 1208658002629 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658002630 DNA-binding site [nucleotide binding]; DNA binding site 1208658002631 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 1208658002632 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 1208658002633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658002634 homodimer interface [polypeptide binding]; other site 1208658002635 catalytic residue [active] 1208658002636 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1208658002637 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 1208658002638 folate binding site [chemical binding]; other site 1208658002639 NADP+ binding site [chemical binding]; other site 1208658002640 thymidylate synthase; Provisional; Region: thyA; PRK13821 1208658002641 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 1208658002642 dimerization interface [polypeptide binding]; other site 1208658002643 active site 1208658002644 OsmC-like protein; Region: OsmC; cl00767 1208658002645 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1208658002646 diiron binding motif [ion binding]; other site 1208658002647 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 1208658002648 Mg++ binding site [ion binding]; other site 1208658002649 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1208658002650 putative catalytic motif [active] 1208658002651 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1208658002652 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 1208658002653 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1208658002654 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1208658002655 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 1208658002656 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 1208658002657 NAD binding site [chemical binding]; other site 1208658002658 substrate binding site [chemical binding]; other site 1208658002659 homodimer interface [polypeptide binding]; other site 1208658002660 active site 1208658002661 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1208658002662 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208658002663 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 1208658002664 putative ADP-binding pocket [chemical binding]; other site 1208658002665 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1208658002666 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 1208658002667 active site 1208658002668 dimer interface [polypeptide binding]; other site 1208658002669 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 1208658002670 Ligand Binding Site [chemical binding]; other site 1208658002671 Molecular Tunnel; other site 1208658002672 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 1208658002673 putative ADP-binding pocket [chemical binding]; other site 1208658002674 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208658002675 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 1208658002676 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 1208658002677 putative ADP-binding pocket [chemical binding]; other site 1208658002678 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 1208658002679 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208658002680 putative ADP-binding pocket [chemical binding]; other site 1208658002681 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1208658002682 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 1208658002683 active site 1208658002684 dimer interface [polypeptide binding]; other site 1208658002685 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 1208658002686 dimer interface [polypeptide binding]; other site 1208658002687 active site 1208658002688 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1208658002689 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 1208658002690 active site 1208658002691 substrate binding site [chemical binding]; other site 1208658002692 metal binding site [ion binding]; metal-binding site 1208658002693 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208658002694 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 1208658002695 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1208658002696 FAD binding domain; Region: FAD_binding_4; pfam01565 1208658002697 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208658002698 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 1208658002699 active site 1208658002700 phosphorylation site [posttranslational modification] 1208658002701 intermolecular recognition site; other site 1208658002702 dimerization interface [polypeptide binding]; other site 1208658002703 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 1208658002704 DNA binding site [nucleotide binding] 1208658002705 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1208658002706 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 1208658002707 dimer interface [polypeptide binding]; other site 1208658002708 phosphorylation site [posttranslational modification] 1208658002709 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 1208658002710 ATP binding site [chemical binding]; other site 1208658002711 Mg2+ binding site [ion binding]; other site 1208658002712 G-X-G motif; other site 1208658002713 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1208658002714 Sulfatase; Region: Sulfatase; pfam00884 1208658002715 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 1208658002716 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 1208658002717 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1208658002718 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1208658002719 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1208658002720 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658002721 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 1208658002722 substrate binding pocket [chemical binding]; other site 1208658002723 dimerization interface [polypeptide binding]; other site 1208658002724 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 1208658002725 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 1208658002726 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1208658002727 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1208658002728 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1208658002729 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1208658002730 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1208658002731 DNA binding site [nucleotide binding] 1208658002732 putative catalytic residues [active] 1208658002733 turnover-facilitating residue; other site 1208658002734 intercalation triad [nucleotide binding]; other site 1208658002735 8OG recognition residue [nucleotide binding]; other site 1208658002736 putative reading head residues; other site 1208658002737 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1208658002738 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1208658002739 TPR repeat; Region: TPR_11; pfam13414 1208658002740 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 1208658002741 binding surface 1208658002742 TPR motif; other site 1208658002743 TPR repeat; Region: TPR_11; pfam13414 1208658002744 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1208658002745 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1208658002746 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1208658002747 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1208658002748 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1208658002749 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1208658002750 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1208658002751 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1208658002752 active site 1208658002753 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1208658002754 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1208658002755 5S rRNA interface [nucleotide binding]; other site 1208658002756 CTC domain interface [polypeptide binding]; other site 1208658002757 L16 interface [polypeptide binding]; other site 1208658002758 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 1208658002759 putative active site [active] 1208658002760 catalytic residue [active] 1208658002761 GTP-binding protein YchF; Reviewed; Region: PRK09601 1208658002762 YchF GTPase; Region: YchF; cd01900 1208658002763 G1 box; other site 1208658002764 GTP/Mg2+ binding site [chemical binding]; other site 1208658002765 Switch I region; other site 1208658002766 G2 box; other site 1208658002767 Switch II region; other site 1208658002768 G3 box; other site 1208658002769 G4 box; other site 1208658002770 G5 box; other site 1208658002771 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 1208658002772 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208658002773 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208658002774 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208658002775 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658002776 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208658002777 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 1208658002778 DNA binding site [nucleotide binding] 1208658002779 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002780 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658002781 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658002782 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 1208658002783 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208658002784 putative substrate translocation pore; other site 1208658002785 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658002786 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658002787 DNA-binding site [nucleotide binding]; DNA binding site 1208658002788 FCD domain; Region: FCD; cl11656 1208658002789 thiamine pyrophosphate protein; Validated; Region: PRK08199 1208658002790 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208658002791 PYR/PP interface [polypeptide binding]; other site 1208658002792 dimer interface [polypeptide binding]; other site 1208658002793 TPP binding site [chemical binding]; other site 1208658002794 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208658002795 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 1208658002796 TPP-binding site [chemical binding]; other site 1208658002797 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002798 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1208658002799 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1208658002800 active site 1208658002801 iron coordination sites [ion binding]; other site 1208658002802 substrate binding pocket [chemical binding]; other site 1208658002803 malic enzyme; Reviewed; Region: PRK12861 1208658002804 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1208658002805 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1208658002806 putative NAD(P) binding site [chemical binding]; other site 1208658002807 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1208658002808 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1208658002809 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658002810 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 1208658002811 dimerization interface [polypeptide binding]; other site 1208658002812 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208658002813 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658002814 dimer interface [polypeptide binding]; other site 1208658002815 conserved gate region; other site 1208658002816 putative PBP binding loops; other site 1208658002817 ABC-ATPase subunit interface; other site 1208658002818 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1208658002819 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658002820 dimer interface [polypeptide binding]; other site 1208658002821 conserved gate region; other site 1208658002822 putative PBP binding loops; other site 1208658002823 ABC-ATPase subunit interface; other site 1208658002824 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 1208658002825 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658002826 Walker A/P-loop; other site 1208658002827 ATP binding site [chemical binding]; other site 1208658002828 Q-loop/lid; other site 1208658002829 ABC transporter signature motif; other site 1208658002830 Walker B; other site 1208658002831 D-loop; other site 1208658002832 H-loop/switch region; other site 1208658002833 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658002834 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658002835 Walker A/P-loop; other site 1208658002836 ATP binding site [chemical binding]; other site 1208658002837 Q-loop/lid; other site 1208658002838 ABC transporter signature motif; other site 1208658002839 Walker B; other site 1208658002840 D-loop; other site 1208658002841 H-loop/switch region; other site 1208658002842 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1208658002843 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1208658002844 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 1208658002845 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1208658002846 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1208658002847 MlrC C-terminus; Region: MlrC_C; pfam07171 1208658002848 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658002849 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658002850 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 1208658002851 dimerization interface [polypeptide binding]; other site 1208658002852 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 1208658002853 putative hydrophobic ligand binding site [chemical binding]; other site 1208658002854 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 1208658002855 dimerization interface [polypeptide binding]; other site 1208658002856 putative DNA binding site [nucleotide binding]; other site 1208658002857 putative Zn2+ binding site [ion binding]; other site 1208658002858 AsmA family; Region: AsmA; pfam05170 1208658002859 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1208658002860 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1208658002861 Benzoate membrane transport protein; Region: BenE; pfam03594 1208658002862 benzoate transporter; Region: benE; TIGR00843 1208658002863 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1208658002864 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1208658002865 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1208658002866 active site 1208658002867 (T/H)XGH motif; other site 1208658002868 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1208658002869 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 1208658002870 S-adenosylmethionine binding site [chemical binding]; other site 1208658002871 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1208658002872 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1208658002873 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 1208658002874 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1208658002875 putative active site [active] 1208658002876 putative metal binding residues [ion binding]; other site 1208658002877 signature motif; other site 1208658002878 putative triphosphate binding site [ion binding]; other site 1208658002879 CHAD domain; Region: CHAD; pfam05235 1208658002880 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1208658002881 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658002882 dimer interface [polypeptide binding]; other site 1208658002883 conserved gate region; other site 1208658002884 ABC-ATPase subunit interface; other site 1208658002885 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1208658002886 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658002887 dimer interface [polypeptide binding]; other site 1208658002888 conserved gate region; other site 1208658002889 ABC-ATPase subunit interface; other site 1208658002890 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 1208658002891 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1208658002892 Walker A/P-loop; other site 1208658002893 ATP binding site [chemical binding]; other site 1208658002894 Q-loop/lid; other site 1208658002895 ABC transporter signature motif; other site 1208658002896 Walker B; other site 1208658002897 D-loop; other site 1208658002898 H-loop/switch region; other site 1208658002899 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1208658002900 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 1208658002901 substrate binding pocket [chemical binding]; other site 1208658002902 membrane-bound complex binding site; other site 1208658002903 hinge residues; other site 1208658002904 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658002905 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658002906 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658002907 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 1208658002908 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1208658002909 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1208658002910 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1208658002911 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1208658002912 dimerization interface [polypeptide binding]; other site 1208658002913 active site 1208658002914 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 1208658002915 homopentamer interface [polypeptide binding]; other site 1208658002916 active site 1208658002917 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1208658002918 thiamine monophosphate kinase; Provisional; Region: PRK05731 1208658002919 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 1208658002920 ATP binding site [chemical binding]; other site 1208658002921 dimerization interface [polypeptide binding]; other site 1208658002922 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1208658002923 tetramer interfaces [polypeptide binding]; other site 1208658002924 binuclear metal-binding site [ion binding]; other site 1208658002925 Competence-damaged protein; Region: CinA; pfam02464 1208658002926 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 1208658002927 active site 1208658002928 dimer interface [polypeptide binding]; other site 1208658002929 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1208658002930 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208658002931 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1208658002932 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1208658002933 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1208658002934 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208658002935 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658002936 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1208658002937 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 1208658002938 ring oligomerisation interface [polypeptide binding]; other site 1208658002939 ATP/Mg binding site [chemical binding]; other site 1208658002940 stacking interactions; other site 1208658002941 hinge regions; other site 1208658002942 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 1208658002943 oligomerisation interface [polypeptide binding]; other site 1208658002944 mobile loop; other site 1208658002945 roof hairpin; other site 1208658002946 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1208658002947 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 1208658002948 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1208658002949 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1208658002950 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002951 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658002952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658002953 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 1208658002954 dimerization interface [polypeptide binding]; other site 1208658002955 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 1208658002956 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1208658002957 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002958 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658002959 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1208658002960 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658002961 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1208658002962 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1208658002963 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1208658002964 Isochorismatase family; Region: Isochorismatase; pfam00857 1208658002965 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1208658002966 catalytic triad [active] 1208658002967 dimer interface [polypeptide binding]; other site 1208658002968 conserved cis-peptide bond; other site 1208658002969 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1208658002970 L-lactate permease; Region: Lactate_perm; cl00701 1208658002971 L-lactate permease; Region: Lactate_perm; cl00701 1208658002972 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1208658002973 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1208658002974 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 1208658002975 Ligand Binding Site [chemical binding]; other site 1208658002976 putative acetyltransferase; Provisional; Region: PRK03624 1208658002977 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208658002978 Coenzyme A binding pocket [chemical binding]; other site 1208658002979 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002980 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1208658002981 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1208658002982 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1208658002983 MlrC C-terminus; Region: MlrC_C; pfam07171 1208658002984 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658002985 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658002986 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658002987 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 1208658002988 dimerization interface [polypeptide binding]; other site 1208658002989 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208658002990 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208658002991 metal binding site [ion binding]; metal-binding site 1208658002992 active site 1208658002993 I-site; other site 1208658002994 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1208658002995 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1208658002996 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208658002997 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1208658002998 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 1208658002999 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1208658003000 active site 1208658003001 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1208658003002 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658003003 Walker A/P-loop; other site 1208658003004 ATP binding site [chemical binding]; other site 1208658003005 Q-loop/lid; other site 1208658003006 ABC transporter signature motif; other site 1208658003007 Walker B; other site 1208658003008 D-loop; other site 1208658003009 H-loop/switch region; other site 1208658003010 TOBE domain; Region: TOBE_2; pfam08402 1208658003011 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1208658003012 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658003013 dimer interface [polypeptide binding]; other site 1208658003014 conserved gate region; other site 1208658003015 putative PBP binding loops; other site 1208658003016 ABC-ATPase subunit interface; other site 1208658003017 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1208658003018 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658003019 dimer interface [polypeptide binding]; other site 1208658003020 conserved gate region; other site 1208658003021 putative PBP binding loops; other site 1208658003022 ABC-ATPase subunit interface; other site 1208658003023 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1208658003024 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1208658003025 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1208658003026 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003027 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 1208658003028 putative dimerization interface [polypeptide binding]; other site 1208658003029 enoyl-CoA hydratase; Provisional; Region: PRK06494 1208658003030 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 1208658003031 substrate binding site [chemical binding]; other site 1208658003032 oxyanion hole (OAH) forming residues; other site 1208658003033 trimer interface [polypeptide binding]; other site 1208658003034 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1208658003035 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658003036 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658003037 acyl-activating enzyme (AAE) consensus motif; other site 1208658003038 AMP binding site [chemical binding]; other site 1208658003039 active site 1208658003040 CoA binding site [chemical binding]; other site 1208658003041 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208658003042 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658003043 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003044 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1208658003045 putative dimerization interface [polypeptide binding]; other site 1208658003046 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1208658003047 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658003048 Walker A/P-loop; other site 1208658003049 ATP binding site [chemical binding]; other site 1208658003050 Q-loop/lid; other site 1208658003051 ABC transporter signature motif; other site 1208658003052 Walker B; other site 1208658003053 D-loop; other site 1208658003054 H-loop/switch region; other site 1208658003055 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658003056 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658003057 Walker A/P-loop; other site 1208658003058 ATP binding site [chemical binding]; other site 1208658003059 Q-loop/lid; other site 1208658003060 ABC transporter signature motif; other site 1208658003061 Walker B; other site 1208658003062 D-loop; other site 1208658003063 H-loop/switch region; other site 1208658003064 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658003065 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208658003066 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658003067 dimer interface [polypeptide binding]; other site 1208658003068 conserved gate region; other site 1208658003069 putative PBP binding loops; other site 1208658003070 ABC-ATPase subunit interface; other site 1208658003071 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1208658003072 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658003073 dimer interface [polypeptide binding]; other site 1208658003074 conserved gate region; other site 1208658003075 putative PBP binding loops; other site 1208658003076 ABC-ATPase subunit interface; other site 1208658003077 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 1208658003078 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1208658003079 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1208658003080 Sulfatase; Region: Sulfatase; cl17466 1208658003081 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 1208658003082 Sulfatase; Region: Sulfatase; cl17466 1208658003083 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1208658003084 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1208658003085 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003086 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208658003087 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 1208658003088 dimerization interface [polypeptide binding]; other site 1208658003089 ornithine cyclodeaminase; Validated; Region: PRK06141 1208658003090 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1208658003091 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1208658003092 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1208658003093 active site 1208658003094 Zn binding site [ion binding]; other site 1208658003095 tartrate dehydrogenase; Region: TTC; TIGR02089 1208658003096 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1208658003097 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1208658003098 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 1208658003099 substrate binding site [chemical binding]; other site 1208658003100 isopropylmalate isomerase large subunit; Provisional; Region: PRK12466 1208658003101 substrate binding site [chemical binding]; other site 1208658003102 ligand binding site [chemical binding]; other site 1208658003103 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 1208658003104 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1208658003105 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208658003106 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658003107 dimer interface [polypeptide binding]; other site 1208658003108 conserved gate region; other site 1208658003109 putative PBP binding loops; other site 1208658003110 ABC-ATPase subunit interface; other site 1208658003111 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208658003112 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208658003113 Walker A/P-loop; other site 1208658003114 ATP binding site [chemical binding]; other site 1208658003115 Q-loop/lid; other site 1208658003116 ABC transporter signature motif; other site 1208658003117 Walker B; other site 1208658003118 D-loop; other site 1208658003119 H-loop/switch region; other site 1208658003120 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658003121 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003122 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 1208658003123 putative dimerization interface [polypeptide binding]; other site 1208658003124 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1208658003125 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1208658003126 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658003127 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003128 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 1208658003129 putative dimerization interface [polypeptide binding]; other site 1208658003130 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003131 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658003132 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 1208658003133 substrate binding site [chemical binding]; other site 1208658003134 oxyanion hole (OAH) forming residues; other site 1208658003135 trimer interface [polypeptide binding]; other site 1208658003136 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003137 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1208658003138 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1208658003139 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1208658003140 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1208658003141 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 1208658003142 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 1208658003143 dimer interface [polypeptide binding]; other site 1208658003144 active site 1208658003145 catalytic residue [active] 1208658003146 metal binding site [ion binding]; metal-binding site 1208658003147 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208658003148 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003149 The C-terminal substrate binding domain of LysR-type transcriptional regulator TrpI, which is involved in control of tryptophan synthesis, contains type 2 periplasmic binding fold; Region: PBP2_TrpI; cd08482 1208658003150 putative dimerization interface [polypeptide binding]; other site 1208658003151 putative substrate binding pocket [chemical binding]; other site 1208658003152 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658003153 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003154 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 1208658003155 putative dimerization interface [polypeptide binding]; other site 1208658003156 putative substrate binding pocket [chemical binding]; other site 1208658003157 enoyl-CoA hydratase; Provisional; Region: PRK06688 1208658003158 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 1208658003159 substrate binding site [chemical binding]; other site 1208658003160 oxyanion hole (OAH) forming residues; other site 1208658003161 trimer interface [polypeptide binding]; other site 1208658003162 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003163 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658003164 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658003165 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208658003166 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003167 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 1208658003168 dimerization interface [polypeptide binding]; other site 1208658003169 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 1208658003170 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1208658003171 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1208658003172 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658003173 Walker A/P-loop; other site 1208658003174 ATP binding site [chemical binding]; other site 1208658003175 Q-loop/lid; other site 1208658003176 ABC transporter signature motif; other site 1208658003177 Walker B; other site 1208658003178 D-loop; other site 1208658003179 H-loop/switch region; other site 1208658003180 TOBE domain; Region: TOBE_2; pfam08402 1208658003181 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1208658003182 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658003183 dimer interface [polypeptide binding]; other site 1208658003184 conserved gate region; other site 1208658003185 putative PBP binding loops; other site 1208658003186 ABC-ATPase subunit interface; other site 1208658003187 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658003188 dimer interface [polypeptide binding]; other site 1208658003189 conserved gate region; other site 1208658003190 putative PBP binding loops; other site 1208658003191 ABC-ATPase subunit interface; other site 1208658003192 aspartate aminotransferase; Provisional; Region: PRK05764 1208658003193 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 1208658003194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658003195 homodimer interface [polypeptide binding]; other site 1208658003196 catalytic residue [active] 1208658003197 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1208658003198 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 1208658003199 tetramer interface [polypeptide binding]; other site 1208658003200 active site 1208658003201 Mg2+/Mn2+ binding site [ion binding]; other site 1208658003202 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003203 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1208658003204 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1208658003205 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_11; cd12175 1208658003206 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1208658003207 putative ligand binding site [chemical binding]; other site 1208658003208 putative NAD binding site [chemical binding]; other site 1208658003209 catalytic site [active] 1208658003211 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1208658003212 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1208658003213 active site 1208658003214 iron coordination sites [ion binding]; other site 1208658003215 substrate binding pocket [chemical binding]; other site 1208658003216 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658003217 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003218 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 1208658003219 dimerization interface [polypeptide binding]; other site 1208658003220 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 1208658003221 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 1208658003222 homodimer interface [polypeptide binding]; other site 1208658003223 substrate-cofactor binding pocket; other site 1208658003224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658003225 catalytic residue [active] 1208658003226 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1208658003227 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1208658003228 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1208658003229 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658003230 DNA-binding site [nucleotide binding]; DNA binding site 1208658003231 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1208658003232 FCD domain; Region: FCD; pfam07729 1208658003233 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658003234 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658003235 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208658003236 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658003237 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208658003238 DctM-like transporters; Region: DctM; pfam06808 1208658003239 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208658003240 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1208658003241 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1208658003242 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1208658003243 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658003244 NAD(P) binding site [chemical binding]; other site 1208658003245 active site 1208658003246 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208658003247 EamA-like transporter family; Region: EamA; pfam00892 1208658003248 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003249 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208658003250 Magnetospirillum NAD(P)+-dependent aldehyde dehydrogenase MSR-1-like; Region: ALDH_MGR_2402; cd07108 1208658003251 NAD(P) binding site [chemical binding]; other site 1208658003252 catalytic residues [active] 1208658003253 catalytic residues [active] 1208658003254 choline dehydrogenase; Validated; Region: PRK02106 1208658003255 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1208658003256 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1208658003257 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208658003258 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658003259 putative PBP binding loops; other site 1208658003260 dimer interface [polypeptide binding]; other site 1208658003261 ABC-ATPase subunit interface; other site 1208658003262 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208658003263 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208658003264 Walker A/P-loop; other site 1208658003265 ATP binding site [chemical binding]; other site 1208658003266 Q-loop/lid; other site 1208658003267 ABC transporter signature motif; other site 1208658003268 Walker B; other site 1208658003269 D-loop; other site 1208658003270 H-loop/switch region; other site 1208658003271 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1208658003272 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 1208658003273 substrate binding pocket [chemical binding]; other site 1208658003274 membrane-bound complex binding site; other site 1208658003275 transcriptional regulator NanR; Provisional; Region: PRK03837 1208658003276 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658003277 DNA-binding site [nucleotide binding]; DNA binding site 1208658003278 FCD domain; Region: FCD; pfam07729 1208658003279 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1208658003280 Amidohydrolase; Region: Amidohydro_2; pfam04909 1208658003281 active site 1208658003282 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1208658003283 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003284 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1208658003285 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208658003286 catalytic site [active] 1208658003287 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1208658003288 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208658003289 Coenzyme A binding pocket [chemical binding]; other site 1208658003290 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658003291 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658003292 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658003293 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658003294 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1208658003295 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003296 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 1208658003297 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1208658003298 active site 1208658003299 enoyl-CoA hydratase; Provisional; Region: PRK06688 1208658003300 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 1208658003301 substrate binding site [chemical binding]; other site 1208658003302 oxyanion hole (OAH) forming residues; other site 1208658003303 trimer interface [polypeptide binding]; other site 1208658003304 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1208658003305 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658003306 NAD(P) binding site [chemical binding]; other site 1208658003307 active site 1208658003308 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 1208658003309 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658003310 substrate binding site [chemical binding]; other site 1208658003311 oxyanion hole (OAH) forming residues; other site 1208658003312 trimer interface [polypeptide binding]; other site 1208658003313 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658003314 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658003315 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658003316 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003317 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1208658003318 putative dimerization interface [polypeptide binding]; other site 1208658003319 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003320 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 1208658003321 MASE1; Region: MASE1; cl17823 1208658003322 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1208658003323 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 1208658003324 active site 1208658003325 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003326 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1208658003327 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003328 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 1208658003329 putative dimerization interface [polypeptide binding]; other site 1208658003330 putative substrate binding pocket [chemical binding]; other site 1208658003331 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658003332 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658003333 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658003334 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658003335 active site 1208658003336 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003337 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003338 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1208658003339 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 1208658003340 [2Fe-2S] cluster binding site [ion binding]; other site 1208658003341 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1208658003342 alpha subunit interface [polypeptide binding]; other site 1208658003343 active site 1208658003344 substrate binding site [chemical binding]; other site 1208658003345 Fe binding site [ion binding]; other site 1208658003346 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1208658003347 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 1208658003348 catalytic loop [active] 1208658003349 iron binding site [ion binding]; other site 1208658003350 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1208658003351 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208658003352 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1208658003353 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1208658003354 dimer interface [polypeptide binding]; other site 1208658003355 active site 1208658003356 catalytic residue [active] 1208658003357 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1208658003358 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 1208658003359 phosphate binding site [ion binding]; other site 1208658003360 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1208658003361 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1208658003362 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658003363 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658003364 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658003365 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003366 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 1208658003367 dimerization interface [polypeptide binding]; other site 1208658003368 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1208658003369 classical (c) SDRs; Region: SDR_c; cd05233 1208658003370 NAD(P) binding site [chemical binding]; other site 1208658003371 active site 1208658003372 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208658003373 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 1208658003374 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 1208658003375 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1208658003376 putative active site [active] 1208658003377 catalytic triad [active] 1208658003378 putative dimer interface [polypeptide binding]; other site 1208658003379 Cupin domain; Region: Cupin_2; pfam07883 1208658003380 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003381 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1208658003382 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003383 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 1208658003384 dimerization interface [polypeptide binding]; other site 1208658003385 substrate binding pocket [chemical binding]; other site 1208658003386 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1208658003387 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 1208658003388 active site 1208658003389 phosphorylation site [posttranslational modification] 1208658003390 intermolecular recognition site; other site 1208658003391 dimerization interface [polypeptide binding]; other site 1208658003392 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 1208658003393 DNA binding residues [nucleotide binding] 1208658003394 dimerization interface [polypeptide binding]; other site 1208658003395 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003396 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 1208658003397 PAS domain; Region: PAS_9; pfam13426 1208658003398 putative active site [active] 1208658003399 heme pocket [chemical binding]; other site 1208658003400 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1208658003401 Histidine kinase; Region: HisKA_3; pfam07730 1208658003402 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 1208658003403 ATP binding site [chemical binding]; other site 1208658003404 Mg2+ binding site [ion binding]; other site 1208658003405 G-X-G motif; other site 1208658003406 enoyl-CoA hydratase; Provisional; Region: PRK06563 1208658003407 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 1208658003408 substrate binding site [chemical binding]; other site 1208658003409 oxyanion hole (OAH) forming residues; other site 1208658003410 trimer interface [polypeptide binding]; other site 1208658003411 enoyl-CoA hydratase; Provisional; Region: PRK08290 1208658003412 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 1208658003413 substrate binding site [chemical binding]; other site 1208658003414 oxyanion hole (OAH) forming residues; other site 1208658003415 trimer interface [polypeptide binding]; other site 1208658003416 AMP-binding domain protein; Validated; Region: PRK07529 1208658003417 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658003418 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 1208658003419 acyl-activating enzyme (AAE) consensus motif; other site 1208658003420 putative AMP binding site [chemical binding]; other site 1208658003421 putative active site [active] 1208658003422 putative CoA binding site [chemical binding]; other site 1208658003423 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1208658003424 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1208658003425 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658003426 active site 1208658003427 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1208658003428 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 1208658003429 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 1208658003430 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 1208658003431 hypothetical protein; Provisional; Region: PRK09040 1208658003432 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1208658003433 ligand binding site [chemical binding]; other site 1208658003434 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 1208658003435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1208658003436 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208658003437 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658003438 DNA-binding site [nucleotide binding]; DNA binding site 1208658003439 UTRA domain; Region: UTRA; pfam07702 1208658003440 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1208658003441 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1208658003442 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658003443 DNA-binding site [nucleotide binding]; DNA binding site 1208658003444 FCD domain; Region: FCD; pfam07729 1208658003445 Amidase; Region: Amidase; cl11426 1208658003446 Amidase; Region: Amidase; cl11426 1208658003447 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658003448 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658003449 enoyl-CoA hydratase; Provisional; Region: PRK06127 1208658003450 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 1208658003451 substrate binding site [chemical binding]; other site 1208658003452 oxyanion hole (OAH) forming residues; other site 1208658003453 trimer interface [polypeptide binding]; other site 1208658003454 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1208658003455 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 1208658003456 substrate binding pocket [chemical binding]; other site 1208658003457 membrane-bound complex binding site; other site 1208658003458 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208658003459 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658003460 dimer interface [polypeptide binding]; other site 1208658003461 conserved gate region; other site 1208658003462 putative PBP binding loops; other site 1208658003463 ABC-ATPase subunit interface; other site 1208658003464 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208658003465 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208658003466 Walker A/P-loop; other site 1208658003467 ATP binding site [chemical binding]; other site 1208658003468 Q-loop/lid; other site 1208658003469 ABC transporter signature motif; other site 1208658003470 Walker B; other site 1208658003471 D-loop; other site 1208658003472 H-loop/switch region; other site 1208658003473 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 1208658003474 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1208658003475 putative active site [active] 1208658003476 putative catalytic site [active] 1208658003477 short chain dehydrogenase; Provisional; Region: PRK06125 1208658003478 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658003479 NAD(P) binding site [chemical binding]; other site 1208658003480 active site 1208658003481 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658003482 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208658003483 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658003484 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208658003485 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1208658003486 ligand binding site [chemical binding]; other site 1208658003487 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1208658003488 active site 1208658003489 catalytic site [active] 1208658003490 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1208658003491 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 1208658003492 active site 1208658003493 acyl-activating enzyme (AAE) consensus motif; other site 1208658003494 putative CoA binding site [chemical binding]; other site 1208658003495 AMP binding site [chemical binding]; other site 1208658003496 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cl10015 1208658003497 homotrimer interaction site [polypeptide binding]; other site 1208658003498 putative active site [active] 1208658003499 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 1208658003500 TM-ABC transporter signature motif; other site 1208658003501 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 1208658003502 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658003503 TM-ABC transporter signature motif; other site 1208658003504 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658003505 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658003506 Walker A/P-loop; other site 1208658003507 ATP binding site [chemical binding]; other site 1208658003508 Q-loop/lid; other site 1208658003509 ABC transporter signature motif; other site 1208658003510 Walker B; other site 1208658003511 D-loop; other site 1208658003512 H-loop/switch region; other site 1208658003513 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658003514 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658003515 Walker A/P-loop; other site 1208658003516 ATP binding site [chemical binding]; other site 1208658003517 Q-loop/lid; other site 1208658003518 ABC transporter signature motif; other site 1208658003519 Walker B; other site 1208658003520 D-loop; other site 1208658003521 H-loop/switch region; other site 1208658003522 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1208658003523 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 1208658003524 active site 1208658003525 FMN binding site [chemical binding]; other site 1208658003526 substrate binding site [chemical binding]; other site 1208658003527 homotetramer interface [polypeptide binding]; other site 1208658003528 catalytic residue [active] 1208658003529 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003530 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 1208658003531 dimerization interface [polypeptide binding]; other site 1208658003532 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 1208658003533 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1208658003534 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 1208658003535 nucleoside/Zn binding site; other site 1208658003536 dimer interface [polypeptide binding]; other site 1208658003537 catalytic motif [active] 1208658003538 putative cyanate transporter; Provisional; Region: cynX; PRK09705 1208658003539 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208658003540 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003541 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 1208658003542 dimerization interface [polypeptide binding]; other site 1208658003543 substrate binding pocket [chemical binding]; other site 1208658003544 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003545 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208658003546 Amidase; Region: Amidase; cl11426 1208658003547 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 1208658003548 Lumazine binding domain; Region: Lum_binding; pfam00677 1208658003549 Lumazine binding domain; Region: Lum_binding; pfam00677 1208658003551 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208658003552 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 1208658003553 putative DNA binding site [nucleotide binding]; other site 1208658003554 putative Zn2+ binding site [ion binding]; other site 1208658003555 AsnC family; Region: AsnC_trans_reg; pfam01037 1208658003556 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1208658003557 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1208658003558 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658003559 acyl-activating enzyme (AAE) consensus motif; other site 1208658003560 AMP binding site [chemical binding]; other site 1208658003561 active site 1208658003562 CoA binding site [chemical binding]; other site 1208658003563 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 1208658003564 putative active site [active] 1208658003565 Zn binding site [ion binding]; other site 1208658003566 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208658003567 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658003568 dimer interface [polypeptide binding]; other site 1208658003569 conserved gate region; other site 1208658003570 putative PBP binding loops; other site 1208658003571 ABC-ATPase subunit interface; other site 1208658003572 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208658003573 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208658003574 Walker A/P-loop; other site 1208658003575 ATP binding site [chemical binding]; other site 1208658003576 Q-loop/lid; other site 1208658003577 ABC transporter signature motif; other site 1208658003578 Walker B; other site 1208658003579 D-loop; other site 1208658003580 H-loop/switch region; other site 1208658003581 NMT1/THI5 like; Region: NMT1; pfam09084 1208658003582 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 1208658003583 substrate binding pocket [chemical binding]; other site 1208658003584 membrane-bound complex binding site; other site 1208658003585 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 1208658003586 CoenzymeA binding site [chemical binding]; other site 1208658003587 subunit interaction site [polypeptide binding]; other site 1208658003588 PHB binding site; other site 1208658003589 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1208658003590 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1208658003591 NAD(P) binding site [chemical binding]; other site 1208658003592 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1208658003593 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1208658003594 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 1208658003595 metal-binding site [ion binding] 1208658003596 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 1208658003597 metal-binding site [ion binding] 1208658003598 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1208658003599 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1208658003600 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1208658003601 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1208658003602 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1208658003603 Zn2+ binding site [ion binding]; other site 1208658003604 Mg2+ binding site [ion binding]; other site 1208658003605 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1208658003606 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 1208658003607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658003608 homodimer interface [polypeptide binding]; other site 1208658003609 catalytic residue [active] 1208658003610 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658003611 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003612 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 1208658003613 dimerization interface [polypeptide binding]; other site 1208658003614 substrate binding pocket [chemical binding]; other site 1208658003615 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1208658003616 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1208658003617 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 1208658003618 metabolite-proton symporter; Region: 2A0106; TIGR00883 1208658003619 putative substrate translocation pore; other site 1208658003620 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1208658003621 classical (c) SDRs; Region: SDR_c; cd05233 1208658003622 NAD(P) binding site [chemical binding]; other site 1208658003623 active site 1208658003624 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208658003625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658003626 NAD(P) binding site [chemical binding]; other site 1208658003627 active site 1208658003628 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1208658003629 Isochorismatase family; Region: Isochorismatase; pfam00857 1208658003630 catalytic triad [active] 1208658003631 dimer interface [polypeptide binding]; other site 1208658003632 conserved cis-peptide bond; other site 1208658003633 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 1208658003634 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208658003635 metal binding site [ion binding]; metal-binding site 1208658003636 active site 1208658003637 I-site; other site 1208658003638 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 1208658003639 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 1208658003640 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1208658003641 Putative Ig domain; Region: He_PIG; pfam05345 1208658003642 VCBS repeat; Region: VCBS_repeat; TIGR01965 1208658003643 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1208658003644 Putative Ig domain; Region: He_PIG; pfam05345 1208658003645 VCBS repeat; Region: VCBS_repeat; TIGR01965 1208658003646 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1208658003647 Putative Ig domain; Region: He_PIG; pfam05345 1208658003648 VCBS repeat; Region: VCBS_repeat; TIGR01965 1208658003649 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1208658003650 Putative Ig domain; Region: He_PIG; pfam05345 1208658003651 VCBS repeat; Region: VCBS_repeat; TIGR01965 1208658003652 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1208658003653 Putative Ig domain; Region: He_PIG; pfam05345 1208658003654 VCBS repeat; Region: VCBS_repeat; TIGR01965 1208658003655 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1208658003656 Putative Ig domain; Region: He_PIG; pfam05345 1208658003657 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 1208658003658 metal ion-dependent adhesion site (MIDAS); other site 1208658003659 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 1208658003660 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1208658003661 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 1208658003662 DNA binding residues [nucleotide binding] 1208658003663 dimerization interface [polypeptide binding]; other site 1208658003664 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1208658003665 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1208658003666 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208658003667 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 1208658003668 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1208658003669 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1208658003670 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 1208658003671 Walker A/P-loop; other site 1208658003672 ATP binding site [chemical binding]; other site 1208658003673 Q-loop/lid; other site 1208658003674 ABC transporter signature motif; other site 1208658003675 Walker B; other site 1208658003676 D-loop; other site 1208658003677 H-loop/switch region; other site 1208658003678 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1208658003679 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 1208658003680 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 1208658003681 putative DNA binding site [nucleotide binding]; other site 1208658003682 arsenical pump membrane protein; Provisional; Region: PRK15445 1208658003683 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 1208658003684 transmembrane helices; other site 1208658003685 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003686 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658003687 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658003688 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658003689 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658003690 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658003691 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658003692 active site 1208658003693 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1208658003694 classical (c) SDRs; Region: SDR_c; cd05233 1208658003695 NAD(P) binding site [chemical binding]; other site 1208658003696 active site 1208658003697 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1208658003698 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658003699 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658003701 transcriptional regulator; Provisional; Region: PRK10632 1208658003702 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003703 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 1208658003704 putative effector binding pocket; other site 1208658003705 dimerization interface [polypeptide binding]; other site 1208658003706 AAA domain; Region: AAA_23; pfam13476 1208658003707 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658003708 Walker A/P-loop; other site 1208658003709 ATP binding site [chemical binding]; other site 1208658003710 Nucleotidyltransferase domain; Region: NTP_transf_2; pfam01909 1208658003711 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1208658003712 dimer interface [polypeptide binding]; other site 1208658003713 putative CheW interface [polypeptide binding]; other site 1208658003714 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1208658003715 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 1208658003716 sensor protein QseC; Provisional; Region: PRK10337 1208658003717 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 1208658003718 dimer interface [polypeptide binding]; other site 1208658003719 phosphorylation site [posttranslational modification] 1208658003720 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 1208658003721 ATP binding site [chemical binding]; other site 1208658003722 Mg2+ binding site [ion binding]; other site 1208658003723 G-X-G motif; other site 1208658003724 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 1208658003725 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 1208658003726 active site 1208658003727 phosphorylation site [posttranslational modification] 1208658003728 intermolecular recognition site; other site 1208658003729 dimerization interface [polypeptide binding]; other site 1208658003730 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 1208658003731 DNA binding site [nucleotide binding] 1208658003732 Thermostable hemolysin; Region: T_hemolysin; pfam12261 1208658003733 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658003734 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1208658003735 acyl-activating enzyme (AAE) consensus motif; other site 1208658003736 AMP binding site [chemical binding]; other site 1208658003737 active site 1208658003738 CoA binding site [chemical binding]; other site 1208658003739 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 1208658003740 heme binding pocket [chemical binding]; other site 1208658003741 heme ligand [chemical binding]; other site 1208658003742 short chain dehydrogenase; Provisional; Region: PRK09072 1208658003743 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658003744 NAD(P) binding site [chemical binding]; other site 1208658003745 active site 1208658003746 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 1208658003747 TPR motif; other site 1208658003748 binding surface 1208658003749 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658003750 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003751 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 1208658003752 putative effector binding pocket; other site 1208658003753 putative dimerization interface [polypeptide binding]; other site 1208658003754 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1208658003755 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1208658003756 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1208658003757 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003758 hypothetical protein; Provisional; Region: PRK07064 1208658003759 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208658003760 PYR/PP interface [polypeptide binding]; other site 1208658003761 dimer interface [polypeptide binding]; other site 1208658003762 TPP binding site [chemical binding]; other site 1208658003763 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208658003764 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 1208658003765 TPP-binding site [chemical binding]; other site 1208658003766 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1208658003767 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208658003768 NAD(P) binding site [chemical binding]; other site 1208658003769 catalytic residues [active] 1208658003770 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658003771 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658003772 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658003773 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 1208658003774 substrate binding site [chemical binding]; other site 1208658003775 oxyanion hole (OAH) forming residues; other site 1208658003776 trimer interface [polypeptide binding]; other site 1208658003777 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658003778 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003779 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 1208658003780 putative dimerization interface [polypeptide binding]; other site 1208658003781 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208658003782 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208658003783 metal binding site [ion binding]; metal-binding site 1208658003784 active site 1208658003785 I-site; other site 1208658003786 aminoglycoside resistance protein; Provisional; Region: PRK13746 1208658003787 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1208658003788 active site 1208658003789 NTP binding site [chemical binding]; other site 1208658003790 metal binding triad [ion binding]; metal-binding site 1208658003791 antibiotic binding site [chemical binding]; other site 1208658003792 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 1208658003793 putative amidase; Provisional; Region: PRK06169 1208658003794 Amidase; Region: Amidase; cl11426 1208658003795 DctM-like transporters; Region: DctM; pfam06808 1208658003796 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208658003797 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1208658003798 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208658003799 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1208658003800 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 1208658003801 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1208658003802 putative catalytic residue [active] 1208658003803 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 1208658003804 Hemerythrin-like domain; Region: Hr-like; cd12108 1208658003805 Fe binding site [ion binding]; other site 1208658003806 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; cl17606 1208658003807 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1208658003808 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1208658003809 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208658003810 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1208658003811 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 1208658003812 DNA binding site [nucleotide binding] 1208658003813 active site 1208658003814 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1208658003815 endonuclease III; Region: ENDO3c; smart00478 1208658003816 minor groove reading motif; other site 1208658003817 helix-hairpin-helix signature motif; other site 1208658003818 substrate binding pocket [chemical binding]; other site 1208658003819 active site 1208658003820 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 1208658003821 putative dimer interface [polypeptide binding]; other site 1208658003822 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208658003823 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1208658003824 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1208658003825 putative active site [active] 1208658003826 putative metal binding site [ion binding]; other site 1208658003827 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1208658003828 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1208658003829 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1208658003830 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 1208658003831 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658003832 DNA-binding site [nucleotide binding]; DNA binding site 1208658003833 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 1208658003834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658003835 homodimer interface [polypeptide binding]; other site 1208658003836 catalytic residue [active] 1208658003837 tetrathionate reductase subunit A; Provisional; Region: PRK14991 1208658003838 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 1208658003839 molybdopterin cofactor binding site; other site 1208658003840 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 1208658003841 putative molybdopterin cofactor binding site [chemical binding]; other site 1208658003842 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 1208658003843 putative molybdopterin cofactor binding site; other site 1208658003844 tetrathionate reductase subunit C; Provisional; Region: PRK14992 1208658003845 tetrathionate reductase subunit B; Provisional; Region: PRK14993 1208658003846 4Fe-4S binding domain; Region: Fer4; pfam00037 1208658003847 EF-hand domain pair; Region: EF_hand_5; pfam13499 1208658003848 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; cd00051 1208658003849 Ca2+ binding site [ion binding]; other site 1208658003850 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1208658003851 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1208658003852 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1208658003853 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 1208658003854 Walker A motif; other site 1208658003855 ATP binding site [chemical binding]; other site 1208658003856 Walker B motif; other site 1208658003857 arginine finger; other site 1208658003858 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1208658003859 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1208658003860 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 1208658003861 putative dimer interface [polypeptide binding]; other site 1208658003862 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658003863 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003864 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 1208658003865 putative dimerization interface [polypeptide binding]; other site 1208658003866 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 1208658003867 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1208658003868 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 1208658003869 active site 1208658003870 purine riboside binding site [chemical binding]; other site 1208658003871 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003872 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1208658003873 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1208658003874 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658003875 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658003876 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1208658003877 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 1208658003878 FMN binding site [chemical binding]; other site 1208658003879 substrate binding site [chemical binding]; other site 1208658003880 putative catalytic residue [active] 1208658003881 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1208658003882 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003883 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 1208658003884 dimerization interface [polypeptide binding]; other site 1208658003885 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208658003886 EamA-like transporter family; Region: EamA; pfam00892 1208658003887 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1208658003888 Helix-turn-helix domain; Region: HTH_18; pfam12833 1208658003889 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208658003890 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1208658003891 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1208658003892 active site 1208658003893 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 1208658003894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1208658003895 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1208658003896 SlyX; Region: SlyX; pfam04102 1208658003897 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1208658003898 threonine dehydratase; Reviewed; Region: PRK09224 1208658003899 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 1208658003900 tetramer interface [polypeptide binding]; other site 1208658003901 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658003902 catalytic residue [active] 1208658003903 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1208658003904 putative Ile/Val binding site [chemical binding]; other site 1208658003905 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1208658003906 putative Ile/Val binding site [chemical binding]; other site 1208658003907 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 1208658003908 putative DNA binding site [nucleotide binding]; other site 1208658003909 putative Zn2+ binding site [ion binding]; other site 1208658003910 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658003911 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1208658003912 active site 1208658003913 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 1208658003914 active site 2 [active] 1208658003915 active site 1 [active] 1208658003916 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658003917 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1208658003918 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003919 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 1208658003920 dimerization interface [polypeptide binding]; other site 1208658003921 substrate binding pocket [chemical binding]; other site 1208658003922 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658003923 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658003924 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658003925 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658003926 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1208658003927 dimerization interface [polypeptide binding]; other site 1208658003928 HutD; Region: HutD; pfam05962 1208658003929 Pirin-related protein [General function prediction only]; Region: COG1741 1208658003930 Pirin; Region: Pirin; pfam02678 1208658003931 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1208658003932 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1208658003933 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 1208658003934 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1208658003935 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 1208658003936 ATP binding site [chemical binding]; other site 1208658003937 G-X-G motif; other site 1208658003938 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1208658003939 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 1208658003940 active site 1208658003941 phosphorylation site [posttranslational modification] 1208658003942 intermolecular recognition site; other site 1208658003943 dimerization interface [polypeptide binding]; other site 1208658003944 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1208658003945 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1208658003946 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1208658003947 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1208658003948 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1208658003949 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 1208658003950 D-pathway; other site 1208658003951 Putative ubiquinol binding site [chemical binding]; other site 1208658003952 Low-spin heme (heme b) binding site [chemical binding]; other site 1208658003953 Putative water exit pathway; other site 1208658003954 Binuclear center (heme o3/CuB) [ion binding]; other site 1208658003955 K-pathway; other site 1208658003956 Putative proton exit pathway; other site 1208658003957 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 1208658003958 Subunit I/III interface [polypeptide binding]; other site 1208658003959 Subunit III/IV interface [polypeptide binding]; other site 1208658003960 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1208658003961 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 1208658003962 dimerization interface [polypeptide binding]; other site 1208658003963 putative DNA binding site [nucleotide binding]; other site 1208658003964 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 1208658003965 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208658003966 putative substrate translocation pore; other site 1208658003967 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 1208658003968 Predicted membrane protein [Function unknown]; Region: COG2259 1208658003969 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 1208658003970 hypothetical protein; Provisional; Region: PRK05409 1208658003971 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 1208658003972 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1208658003973 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1208658003974 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 1208658003975 N-terminal plug; other site 1208658003976 ligand-binding site [chemical binding]; other site 1208658003977 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1208658003978 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1208658003979 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1208658003980 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1208658003981 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1208658003982 Peptidase family M23; Region: Peptidase_M23; pfam01551 1208658003983 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_24; cd09012 1208658003984 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208658003985 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1208658003986 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1208658003987 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1208658003988 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1208658003989 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1208658003990 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208658003991 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1208658003992 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1208658003993 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1208658003994 putative NAD(P) binding site [chemical binding]; other site 1208658003995 putative active site [active] 1208658003996 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1208658003997 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 1208658003998 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 1208658003999 Subunit I/III interface [polypeptide binding]; other site 1208658004000 Subunit III/IV interface [polypeptide binding]; other site 1208658004001 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1208658004002 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 1208658004003 D-pathway; other site 1208658004004 Putative ubiquinol binding site [chemical binding]; other site 1208658004005 Low-spin heme (heme b) binding site [chemical binding]; other site 1208658004006 Putative water exit pathway; other site 1208658004007 Binuclear center (heme o3/CuB) [ion binding]; other site 1208658004008 K-pathway; other site 1208658004009 Putative proton exit pathway; other site 1208658004010 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 1208658004011 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1208658004012 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1208658004013 metabolite-proton symporter; Region: 2A0106; TIGR00883 1208658004014 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1208658004015 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 1208658004016 tetramer interface [polypeptide binding]; other site 1208658004017 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658004018 catalytic residue [active] 1208658004019 threonine and homoserine efflux system; Provisional; Region: PRK10532 1208658004020 EamA-like transporter family; Region: EamA; pfam00892 1208658004021 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 1208658004022 Ligand Binding Site [chemical binding]; other site 1208658004023 Chromate transporter; Region: Chromate_transp; pfam02417 1208658004024 Chromate transporter; Region: Chromate_transp; pfam02417 1208658004025 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1208658004026 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 1208658004027 S-adenosylmethionine binding site [chemical binding]; other site 1208658004028 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 1208658004029 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1208658004030 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1208658004031 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 1208658004032 catalytic loop [active] 1208658004033 iron binding site [ion binding]; other site 1208658004034 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1208658004035 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 1208658004036 [4Fe-4S] binding site [ion binding]; other site 1208658004037 molybdopterin cofactor binding site; other site 1208658004038 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 1208658004039 molybdopterin cofactor binding site; other site 1208658004040 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 1208658004041 putative dimer interface [polypeptide binding]; other site 1208658004042 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1208658004043 SLBB domain; Region: SLBB; pfam10531 1208658004044 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1208658004045 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 1208658004046 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 1208658004047 putative dimer interface [polypeptide binding]; other site 1208658004048 [2Fe-2S] cluster binding site [ion binding]; other site 1208658004049 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1208658004050 PBP superfamily domain; Region: PBP_like; pfam12727 1208658004051 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1208658004052 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 1208658004053 FeS/SAM binding site; other site 1208658004054 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1208658004055 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1208658004056 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 1208658004057 dimer interface [polypeptide binding]; other site 1208658004058 putative functional site; other site 1208658004059 putative MPT binding site; other site 1208658004060 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 1208658004061 MPT binding site; other site 1208658004062 trimer interface [polypeptide binding]; other site 1208658004063 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 1208658004064 MoaE homodimer interface [polypeptide binding]; other site 1208658004065 MoaD interaction [polypeptide binding]; other site 1208658004066 active site residues [active] 1208658004067 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1208658004068 MoaE interaction surface [polypeptide binding]; other site 1208658004069 MoeB interaction surface [polypeptide binding]; other site 1208658004070 thiocarboxylated glycine; other site 1208658004071 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 1208658004072 trimer interface [polypeptide binding]; other site 1208658004073 dimer interface [polypeptide binding]; other site 1208658004074 putative active site [active] 1208658004075 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1208658004076 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1208658004077 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1208658004078 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1208658004079 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1208658004080 ligand binding site [chemical binding]; other site 1208658004081 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1208658004082 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 1208658004083 catalytic triad [active] 1208658004084 dimer interface [polypeptide binding]; other site 1208658004085 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 1208658004086 putative MFS family transporter protein; Provisional; Region: PRK03633 1208658004087 putative substrate translocation pore; other site 1208658004088 biotin synthase; Region: bioB; TIGR00433 1208658004089 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 1208658004090 FeS/SAM binding site; other site 1208658004091 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1208658004092 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658004093 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658004094 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1208658004095 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 1208658004096 tetramer interface [polypeptide binding]; other site 1208658004097 active site 1208658004098 Mg2+/Mn2+ binding site [ion binding]; other site 1208658004099 aconitate hydratase; Validated; Region: PRK09277 1208658004100 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1208658004101 substrate binding site [chemical binding]; other site 1208658004102 ligand binding site [chemical binding]; other site 1208658004103 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 1208658004104 substrate binding site [chemical binding]; other site 1208658004105 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 1208658004106 phenylhydantoinase; Validated; Region: PRK08323 1208658004107 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 1208658004108 active site 1208658004109 tetramer interface [polypeptide binding]; other site 1208658004110 Isochorismatase family; Region: Isochorismatase; pfam00857 1208658004111 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 1208658004112 catalytic triad [active] 1208658004113 conserved cis-peptide bond; other site 1208658004114 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1208658004115 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 1208658004116 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1208658004117 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208658004118 hypothetical protein; Validated; Region: PRK07121 1208658004119 L-aspartate oxidase; Provisional; Region: PRK06175 1208658004120 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1208658004121 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658004122 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1208658004123 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658004124 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658004125 DNA-binding site [nucleotide binding]; DNA binding site 1208658004126 FCD domain; Region: FCD; pfam07729 1208658004127 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1208658004128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1208658004129 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1208658004130 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 1208658004131 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1208658004132 active site 1208658004133 catalytic tetrad [active] 1208658004134 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1208658004135 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1208658004136 putative active site [active] 1208658004137 catalytic triad [active] 1208658004138 putative dimer interface [polypeptide binding]; other site 1208658004139 FOG: CBS domain [General function prediction only]; Region: COG0517 1208658004140 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 1208658004141 Transporter associated domain; Region: CorC_HlyC; smart01091 1208658004142 metal-binding heat shock protein; Provisional; Region: PRK00016 1208658004143 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1208658004144 PhoH-like protein; Region: PhoH; pfam02562 1208658004145 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1208658004146 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1208658004147 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 1208658004148 FeS/SAM binding site; other site 1208658004149 TRAM domain; Region: TRAM; pfam01938 1208658004150 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 1208658004151 active site 1208658004152 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1208658004153 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1208658004154 Protein export membrane protein; Region: SecD_SecF; pfam02355 1208658004155 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1208658004156 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1208658004157 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1208658004158 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 1208658004159 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1208658004160 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1208658004161 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1208658004162 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1208658004163 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1208658004164 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1208658004165 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1208658004166 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1208658004167 active site 1208658004168 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1208658004169 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208658004170 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658004171 siroheme synthase; Provisional; Region: cysG; PRK10637 1208658004172 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1208658004173 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 1208658004174 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1208658004175 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1208658004176 active site 1208658004177 SAM binding site [chemical binding]; other site 1208658004178 homodimer interface [polypeptide binding]; other site 1208658004179 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1208658004180 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1208658004181 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1208658004182 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 1208658004183 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1208658004184 catalytic residue [active] 1208658004185 aminotransferase; Validated; Region: PRK07337 1208658004186 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 1208658004187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658004188 homodimer interface [polypeptide binding]; other site 1208658004189 catalytic residue [active] 1208658004190 malic enzyme; Reviewed; Region: PRK12861 1208658004191 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1208658004192 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1208658004193 putative NAD(P) binding site [chemical binding]; other site 1208658004194 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1208658004195 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1208658004196 active site 1208658004197 nucleophile elbow; other site 1208658004198 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 1208658004199 putative RNAase interaction site [polypeptide binding]; other site 1208658004200 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1208658004201 RNA methyltransferase, RsmE family; Region: TIGR00046 1208658004202 transketolase; Reviewed; Region: PRK12753 1208658004203 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 1208658004204 TPP-binding site [chemical binding]; other site 1208658004205 dimer interface [polypeptide binding]; other site 1208658004206 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 1208658004207 PYR/PP interface [polypeptide binding]; other site 1208658004208 dimer interface [polypeptide binding]; other site 1208658004209 TPP binding site [chemical binding]; other site 1208658004210 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1208658004211 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1208658004212 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1208658004213 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1208658004214 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1208658004215 Phosphoglycerate kinase; Region: PGK; pfam00162 1208658004216 substrate binding site [chemical binding]; other site 1208658004217 hinge regions; other site 1208658004218 ADP binding site [chemical binding]; other site 1208658004219 catalytic site [active] 1208658004220 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 1208658004221 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1208658004222 NAD binding site [chemical binding]; other site 1208658004223 homotetramer interface [polypeptide binding]; other site 1208658004224 homodimer interface [polypeptide binding]; other site 1208658004225 substrate binding site [chemical binding]; other site 1208658004226 active site 1208658004227 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1208658004228 propionate/acetate kinase; Provisional; Region: PRK12379 1208658004229 phosphate acetyltransferase; Provisional; Region: PRK11890 1208658004230 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 1208658004231 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 1208658004232 glutathione S-transferase; Provisional; Region: PRK15113 1208658004233 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 1208658004234 C-terminal domain interface [polypeptide binding]; other site 1208658004235 GSH binding site (G-site) [chemical binding]; other site 1208658004236 dimer interface [polypeptide binding]; other site 1208658004237 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1208658004238 N-terminal domain interface [polypeptide binding]; other site 1208658004239 DinB family; Region: DinB; cl17821 1208658004240 DinB superfamily; Region: DinB_2; pfam12867 1208658004241 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208658004242 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1208658004243 Coenzyme A binding pocket [chemical binding]; other site 1208658004244 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; cl02542 1208658004245 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1208658004246 substrate binding site [polypeptide binding]; other site 1208658004247 AzlC protein; Region: AzlC; pfam03591 1208658004248 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1208658004249 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1208658004250 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 1208658004251 MPT binding site; other site 1208658004252 trimer interface [polypeptide binding]; other site 1208658004253 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1208658004254 Peptidase family M23; Region: Peptidase_M23; pfam01551 1208658004255 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 1208658004256 rRNA binding site [nucleotide binding]; other site 1208658004257 predicted 30S ribosome binding site; other site 1208658004258 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1208658004259 formate dehydrogenase; Provisional; Region: PRK07574 1208658004260 NAD-dependent Formate Dehydrogenase (FDH); Region: FDH; cd05302 1208658004261 dimerization interface [polypeptide binding]; other site 1208658004262 ligand binding site [chemical binding]; other site 1208658004263 NAD binding site [chemical binding]; other site 1208658004264 catalytic site [active] 1208658004265 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 1208658004266 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 1208658004267 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 1208658004268 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1208658004269 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 1208658004270 DNA binding residues [nucleotide binding] 1208658004271 dimerization interface [polypeptide binding]; other site 1208658004272 MOSC domain; Region: MOSC; pfam03473 1208658004273 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 1208658004274 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1208658004275 intersubunit interface [polypeptide binding]; other site 1208658004276 active site 1208658004277 zinc binding site [ion binding]; other site 1208658004278 Na+ binding site [ion binding]; other site 1208658004279 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1208658004280 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1208658004281 ATP binding site [chemical binding]; other site 1208658004282 active site 1208658004283 substrate binding site [chemical binding]; other site 1208658004285 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 1208658004286 toxin interface [polypeptide binding]; other site 1208658004287 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 1208658004288 Zn binding site [ion binding]; other site 1208658004289 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 1208658004290 non-specific DNA binding site [nucleotide binding]; other site 1208658004291 salt bridge; other site 1208658004292 sequence-specific DNA binding site [nucleotide binding]; other site 1208658004293 AIR carboxylase; Region: AIRC; pfam00731 1208658004294 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1208658004295 ATP-grasp domain; Region: ATP-grasp; pfam02222 1208658004296 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1208658004297 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1208658004298 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1208658004299 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 1208658004300 substrate binding pocket [chemical binding]; other site 1208658004301 membrane-bound complex binding site; other site 1208658004302 hinge residues; other site 1208658004303 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658004304 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658004305 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658004306 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1208658004307 agmatinase; Region: agmatinase; TIGR01230 1208658004308 oligomer interface [polypeptide binding]; other site 1208658004309 putative active site [active] 1208658004310 Mn binding site [ion binding]; other site 1208658004311 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 1208658004312 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1208658004313 substrate binding pocket [chemical binding]; other site 1208658004314 membrane-bound complex binding site; other site 1208658004315 hinge residues; other site 1208658004316 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1208658004317 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658004318 dimer interface [polypeptide binding]; other site 1208658004319 conserved gate region; other site 1208658004320 putative PBP binding loops; other site 1208658004321 ABC-ATPase subunit interface; other site 1208658004322 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208658004323 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208658004324 Walker A/P-loop; other site 1208658004325 ATP binding site [chemical binding]; other site 1208658004326 Q-loop/lid; other site 1208658004327 ABC transporter signature motif; other site 1208658004328 Walker B; other site 1208658004329 D-loop; other site 1208658004330 H-loop/switch region; other site 1208658004331 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208658004332 PYR/PP interface [polypeptide binding]; other site 1208658004333 dimer interface [polypeptide binding]; other site 1208658004334 TPP binding site [chemical binding]; other site 1208658004335 hypothetical protein; Validated; Region: PRK07586 1208658004336 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 1208658004337 TPP-binding site [chemical binding]; other site 1208658004338 dimer interface [polypeptide binding]; other site 1208658004339 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 1208658004340 putative active site [active] 1208658004341 putative catalytic site [active] 1208658004342 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 1208658004343 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1208658004344 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1208658004345 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658004346 FAD binding site [chemical binding]; other site 1208658004347 substrate binding pocket [chemical binding]; other site 1208658004348 catalytic base [active] 1208658004349 thiamine pyrophosphate protein; Validated; Region: PRK08199 1208658004350 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208658004351 PYR/PP interface [polypeptide binding]; other site 1208658004352 dimer interface [polypeptide binding]; other site 1208658004353 TPP binding site [chemical binding]; other site 1208658004354 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208658004355 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 1208658004356 TPP-binding site [chemical binding]; other site 1208658004357 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208658004358 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658004359 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 1208658004360 dimerization interface [polypeptide binding]; other site 1208658004361 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1208658004362 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 1208658004363 active site 1208658004364 DNA binding site [nucleotide binding] 1208658004365 Int/Topo IB signature motif; other site 1208658004366 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 1208658004367 putative deacylase active site [active] 1208658004368 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1208658004369 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1208658004370 conserved cys residue [active] 1208658004371 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1208658004372 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1208658004373 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1208658004374 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1208658004375 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 1208658004376 putative substrate translocation pore; other site 1208658004377 probable DNA repair protein; Region: TIGR03623 1208658004378 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1208658004379 Part of AAA domain; Region: AAA_19; pfam13245 1208658004380 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1208658004381 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1208658004382 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1208658004383 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 1208658004384 Walker A motif; other site 1208658004385 ATP binding site [chemical binding]; other site 1208658004386 Walker B motif; other site 1208658004387 arginine finger; other site 1208658004388 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1208658004389 hypothetical protein; Validated; Region: PRK00153 1208658004390 recombination protein RecR; Reviewed; Region: recR; PRK00076 1208658004391 RecR protein; Region: RecR; pfam02132 1208658004392 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 1208658004393 putative active site [active] 1208658004394 putative metal-binding site [ion binding]; other site 1208658004395 tetramer interface [polypeptide binding]; other site 1208658004396 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658004397 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658004398 NMT1-like family; Region: NMT1_2; pfam13379 1208658004399 NMT1/THI5 like; Region: NMT1; pfam09084 1208658004400 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208658004401 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208658004402 Walker A/P-loop; other site 1208658004403 ATP binding site [chemical binding]; other site 1208658004404 Q-loop/lid; other site 1208658004405 ABC transporter signature motif; other site 1208658004406 Walker B; other site 1208658004407 D-loop; other site 1208658004408 H-loop/switch region; other site 1208658004409 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208658004410 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658004411 dimer interface [polypeptide binding]; other site 1208658004412 conserved gate region; other site 1208658004413 putative PBP binding loops; other site 1208658004414 ABC-ATPase subunit interface; other site 1208658004415 transaldolase-like protein; Provisional; Region: PTZ00411 1208658004416 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1208658004417 active site 1208658004418 dimer interface [polypeptide binding]; other site 1208658004419 catalytic residue [active] 1208658004420 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1208658004421 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1208658004422 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1208658004423 catalytic site [active] 1208658004424 subunit interface [polypeptide binding]; other site 1208658004425 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1208658004426 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1208658004427 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1208658004428 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1208658004429 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1208658004430 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208658004431 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 1208658004432 IMP binding site; other site 1208658004433 dimer interface [polypeptide binding]; other site 1208658004434 interdomain contacts; other site 1208658004435 partial ornithine binding site; other site 1208658004436 short chain dehydrogenase; Provisional; Region: PRK07024 1208658004437 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658004438 NAD(P) binding site [chemical binding]; other site 1208658004439 active site 1208658004440 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 1208658004441 catalytic core [active] 1208658004442 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658004443 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658004444 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 1208658004445 dimerization interface [polypeptide binding]; other site 1208658004446 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1208658004447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658004448 Walker A/P-loop; other site 1208658004449 ATP binding site [chemical binding]; other site 1208658004450 Q-loop/lid; other site 1208658004451 ABC transporter signature motif; other site 1208658004452 Walker B; other site 1208658004453 D-loop; other site 1208658004454 H-loop/switch region; other site 1208658004455 TOBE domain; Region: TOBE_2; pfam08402 1208658004456 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1208658004457 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658004458 dimer interface [polypeptide binding]; other site 1208658004459 conserved gate region; other site 1208658004460 putative PBP binding loops; other site 1208658004461 ABC-ATPase subunit interface; other site 1208658004462 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658004463 dimer interface [polypeptide binding]; other site 1208658004464 conserved gate region; other site 1208658004465 putative PBP binding loops; other site 1208658004466 ABC-ATPase subunit interface; other site 1208658004467 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1208658004468 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1208658004469 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 1208658004470 dimerization interface [polypeptide binding]; other site 1208658004471 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1208658004472 dimer interface [polypeptide binding]; other site 1208658004473 putative CheW interface [polypeptide binding]; other site 1208658004474 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1208658004475 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1208658004476 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1208658004477 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 1208658004478 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1208658004479 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 1208658004480 S-adenosylmethionine binding site [chemical binding]; other site 1208658004481 FtsH Extracellular; Region: FtsH_ext; pfam06480 1208658004482 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1208658004483 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 1208658004484 Walker A motif; other site 1208658004485 ATP binding site [chemical binding]; other site 1208658004486 Walker B motif; other site 1208658004487 arginine finger; other site 1208658004488 Peptidase family M41; Region: Peptidase_M41; pfam01434 1208658004489 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 1208658004490 dihydropteroate synthase; Region: DHPS; TIGR01496 1208658004491 substrate binding pocket [chemical binding]; other site 1208658004492 dimer interface [polypeptide binding]; other site 1208658004493 inhibitor binding site; inhibition site 1208658004494 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1208658004495 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 1208658004496 active site 1208658004497 substrate binding site [chemical binding]; other site 1208658004498 metal binding site [ion binding]; metal-binding site 1208658004499 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1208658004500 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1208658004501 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1208658004502 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 1208658004503 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1208658004504 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1208658004505 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1208658004506 putative active site [active] 1208658004507 catalytic site [active] 1208658004508 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1208658004509 putative domain interface [polypeptide binding]; other site 1208658004510 putative active site [active] 1208658004511 catalytic site [active] 1208658004512 PBP superfamily domain; Region: PBP_like_2; cl17296 1208658004513 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 1208658004514 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658004515 dimer interface [polypeptide binding]; other site 1208658004516 conserved gate region; other site 1208658004517 putative PBP binding loops; other site 1208658004518 ABC-ATPase subunit interface; other site 1208658004519 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1208658004520 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658004521 dimer interface [polypeptide binding]; other site 1208658004522 conserved gate region; other site 1208658004523 putative PBP binding loops; other site 1208658004524 ABC-ATPase subunit interface; other site 1208658004525 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1208658004526 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1208658004527 Walker A/P-loop; other site 1208658004528 ATP binding site [chemical binding]; other site 1208658004529 Q-loop/lid; other site 1208658004530 ABC transporter signature motif; other site 1208658004531 Walker B; other site 1208658004532 D-loop; other site 1208658004533 H-loop/switch region; other site 1208658004534 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1208658004535 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1208658004536 YcfA-like protein; Region: YcfA; pfam07927 1208658004537 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1208658004538 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1208658004539 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1208658004540 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1208658004541 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1208658004542 Cytochrome c; Region: Cytochrom_C; pfam00034 1208658004543 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_cladeC; cd03378 1208658004544 active site clefts [active] 1208658004545 zinc binding site [ion binding]; other site 1208658004546 dimer interface [polypeptide binding]; other site 1208658004547 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658004548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658004549 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 1208658004550 dimerization interface [polypeptide binding]; other site 1208658004551 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1208658004552 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1208658004553 putative active site [active] 1208658004554 metal binding site [ion binding]; metal-binding site 1208658004555 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1208658004556 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1208658004557 dimer interface [polypeptide binding]; other site 1208658004558 NADP binding site [chemical binding]; other site 1208658004559 catalytic residues [active] 1208658004560 Cupin domain; Region: Cupin_2; pfam07883 1208658004561 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1208658004562 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658004563 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658004564 Walker A/P-loop; other site 1208658004565 ATP binding site [chemical binding]; other site 1208658004566 Q-loop/lid; other site 1208658004567 ABC transporter signature motif; other site 1208658004568 Walker B; other site 1208658004569 D-loop; other site 1208658004570 H-loop/switch region; other site 1208658004571 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658004572 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658004573 Walker A/P-loop; other site 1208658004574 ATP binding site [chemical binding]; other site 1208658004575 Q-loop/lid; other site 1208658004576 ABC transporter signature motif; other site 1208658004577 Walker B; other site 1208658004578 D-loop; other site 1208658004579 H-loop/switch region; other site 1208658004580 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658004581 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 1208658004582 TM-ABC transporter signature motif; other site 1208658004583 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658004584 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 1208658004585 TM-ABC transporter signature motif; other site 1208658004586 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208658004587 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 1208658004588 putative ligand binding site [chemical binding]; other site 1208658004589 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658004590 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658004591 Walker A/P-loop; other site 1208658004592 ATP binding site [chemical binding]; other site 1208658004593 Q-loop/lid; other site 1208658004594 ABC transporter signature motif; other site 1208658004595 Walker B; other site 1208658004596 D-loop; other site 1208658004597 H-loop/switch region; other site 1208658004598 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658004599 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658004600 Walker A/P-loop; other site 1208658004601 ATP binding site [chemical binding]; other site 1208658004602 Q-loop/lid; other site 1208658004603 ABC transporter signature motif; other site 1208658004604 Walker B; other site 1208658004605 D-loop; other site 1208658004606 H-loop/switch region; other site 1208658004607 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658004608 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 1208658004609 TM-ABC transporter signature motif; other site 1208658004610 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658004611 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 1208658004612 TM-ABC transporter signature motif; other site 1208658004613 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208658004614 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 1208658004615 putative ligand binding site [chemical binding]; other site 1208658004616 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 1208658004617 dimerization interface [polypeptide binding]; other site 1208658004618 putative DNA binding site [nucleotide binding]; other site 1208658004619 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658004620 putative Zn2+ binding site [ion binding]; other site 1208658004621 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658004622 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1208658004623 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208658004624 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1208658004625 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1208658004626 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1208658004627 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1208658004628 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1208658004629 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1208658004630 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658004631 enoyl-CoA hydratase; Provisional; Region: PRK06144 1208658004632 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 1208658004633 substrate binding site [chemical binding]; other site 1208658004634 oxyanion hole (OAH) forming residues; other site 1208658004635 trimer interface [polypeptide binding]; other site 1208658004636 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658004637 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658004638 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208658004639 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1208658004640 ligand binding site [chemical binding]; other site 1208658004641 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1208658004642 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 1208658004643 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658004644 TM-ABC transporter signature motif; other site 1208658004645 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658004646 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 1208658004647 TM-ABC transporter signature motif; other site 1208658004648 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658004649 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658004650 Walker A/P-loop; other site 1208658004651 ATP binding site [chemical binding]; other site 1208658004652 Q-loop/lid; other site 1208658004653 ABC transporter signature motif; other site 1208658004654 Walker B; other site 1208658004655 D-loop; other site 1208658004656 H-loop/switch region; other site 1208658004657 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658004658 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658004659 Walker A/P-loop; other site 1208658004660 ATP binding site [chemical binding]; other site 1208658004661 Q-loop/lid; other site 1208658004662 ABC transporter signature motif; other site 1208658004663 Walker B; other site 1208658004664 D-loop; other site 1208658004665 H-loop/switch region; other site 1208658004666 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208658004667 Amidase; Region: Amidase; cl11426 1208658004668 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1208658004669 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208658004670 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1208658004671 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658004672 DNA-binding site [nucleotide binding]; DNA binding site 1208658004673 FCD domain; Region: FCD; pfam07729 1208658004674 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 1208658004675 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658004676 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208658004677 NAD(P) binding site [chemical binding]; other site 1208658004678 active site 1208658004679 short chain dehydrogenase; Provisional; Region: PRK12829 1208658004680 classical (c) SDRs; Region: SDR_c; cd05233 1208658004681 NAD(P) binding site [chemical binding]; other site 1208658004682 active site 1208658004683 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208658004684 DctM-like transporters; Region: DctM; pfam06808 1208658004685 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1208658004686 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208658004687 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1208658004688 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1208658004689 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 1208658004690 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1208658004691 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658004692 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658004693 DNA-binding site [nucleotide binding]; DNA binding site 1208658004694 FCD domain; Region: FCD; pfam07729 1208658004695 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208658004696 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 1208658004697 putative DNA binding site [nucleotide binding]; other site 1208658004698 putative Zn2+ binding site [ion binding]; other site 1208658004699 AsnC family; Region: AsnC_trans_reg; pfam01037 1208658004700 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 1208658004701 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208658004702 catalytic residue [active] 1208658004703 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1208658004704 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1208658004705 metal binding site [ion binding]; metal-binding site 1208658004706 putative dimer interface [polypeptide binding]; other site 1208658004707 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1208658004708 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 1208658004709 substrate binding pocket [chemical binding]; other site 1208658004710 membrane-bound complex binding site; other site 1208658004711 hinge residues; other site 1208658004712 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1208658004713 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658004714 conserved gate region; other site 1208658004715 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658004716 putative PBP binding loops; other site 1208658004717 dimer interface [polypeptide binding]; other site 1208658004718 ABC-ATPase subunit interface; other site 1208658004719 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658004720 dimer interface [polypeptide binding]; other site 1208658004721 conserved gate region; other site 1208658004722 putative PBP binding loops; other site 1208658004723 ABC-ATPase subunit interface; other site 1208658004724 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208658004725 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208658004726 Walker A/P-loop; other site 1208658004727 ATP binding site [chemical binding]; other site 1208658004728 Q-loop/lid; other site 1208658004729 ABC transporter signature motif; other site 1208658004730 Walker B; other site 1208658004731 D-loop; other site 1208658004732 H-loop/switch region; other site 1208658004733 aspartate aminotransferase; Provisional; Region: PRK06207 1208658004734 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 1208658004735 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658004736 homodimer interface [polypeptide binding]; other site 1208658004737 catalytic residue [active] 1208658004738 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1208658004739 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1208658004740 ligand binding site [chemical binding]; other site 1208658004741 NAD binding site [chemical binding]; other site 1208658004742 dimerization interface [polypeptide binding]; other site 1208658004743 catalytic site [active] 1208658004744 allantoate amidohydrolase; Reviewed; Region: PRK12891 1208658004745 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1208658004746 active site 1208658004747 metal binding site [ion binding]; metal-binding site 1208658004748 dimer interface [polypeptide binding]; other site 1208658004749 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1208658004750 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1208658004751 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1208658004752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208658004753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208658004754 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658004755 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658004756 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 1208658004757 dimerization interface [polypeptide binding]; other site 1208658004758 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1208658004759 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 1208658004760 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1208658004761 TrkA-C domain; Region: TrkA_C; pfam02080 1208658004762 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1208658004763 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658004764 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658004765 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 1208658004766 putative dimerization interface [polypeptide binding]; other site 1208658004767 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1208658004768 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 1208658004769 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 1208658004770 active site residue [active] 1208658004771 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 1208658004772 active site residue [active] 1208658004773 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 1208658004774 active site residue [active] 1208658004775 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1208658004776 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 1208658004777 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208658004778 catalytic residue [active] 1208658004779 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_5; cd06255 1208658004780 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1208658004781 putative active site [active] 1208658004782 Zn binding site [ion binding]; other site 1208658004783 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658004784 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 1208658004785 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1208658004786 molybdopterin cofactor binding site; other site 1208658004787 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1208658004788 molybdopterin cofactor binding site; other site 1208658004789 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 1208658004790 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1208658004791 putative active site [active] 1208658004792 catalytic triad [active] 1208658004793 putative dimer interface [polypeptide binding]; other site 1208658004794 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658004795 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658004796 Walker A/P-loop; other site 1208658004797 ATP binding site [chemical binding]; other site 1208658004798 Q-loop/lid; other site 1208658004799 ABC transporter signature motif; other site 1208658004800 Walker B; other site 1208658004801 D-loop; other site 1208658004802 H-loop/switch region; other site 1208658004803 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658004804 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658004805 Walker A/P-loop; other site 1208658004806 ATP binding site [chemical binding]; other site 1208658004807 Q-loop/lid; other site 1208658004808 ABC transporter signature motif; other site 1208658004809 Walker B; other site 1208658004810 D-loop; other site 1208658004811 H-loop/switch region; other site 1208658004812 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658004813 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 1208658004814 TM-ABC transporter signature motif; other site 1208658004815 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 1208658004816 TM-ABC transporter signature motif; other site 1208658004817 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208658004818 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1208658004819 ligand binding site [chemical binding]; other site 1208658004820 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 1208658004821 putative ADP-ribose binding site [chemical binding]; other site 1208658004822 putative active site [active] 1208658004823 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 1208658004824 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1208658004825 putative active site [active] 1208658004826 PA2301 is an uncharacterized Pseudomonas aeruginosa 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...; Region: PA2301; cd04939 1208658004827 putative deacylase active site [active] 1208658004828 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1208658004829 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1208658004830 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1208658004831 Walker A/P-loop; other site 1208658004832 ATP binding site [chemical binding]; other site 1208658004833 Q-loop/lid; other site 1208658004834 ABC transporter signature motif; other site 1208658004835 Walker B; other site 1208658004836 D-loop; other site 1208658004837 H-loop/switch region; other site 1208658004838 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 1208658004839 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1208658004840 Flagellar regulator YcgR; Region: YcgR; pfam07317 1208658004841 PilZ domain; Region: PilZ; pfam07238 1208658004842 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; cd00541 1208658004843 dimerization interface [polypeptide binding]; other site 1208658004844 substrate binding site [chemical binding]; other site 1208658004845 active site 1208658004846 calcium binding site [ion binding]; other site 1208658004847 aldehyde dehydrogenase family 7 member; Region: PLN02315 1208658004848 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1208658004849 tetrameric interface [polypeptide binding]; other site 1208658004850 NAD binding site [chemical binding]; other site 1208658004851 catalytic residues [active] 1208658004852 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1208658004853 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1208658004854 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 1208658004855 carboxyltransferase (CT) interaction site; other site 1208658004856 biotinylation site [posttranslational modification]; other site 1208658004857 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 1208658004858 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1208658004859 active site 1208658004860 catalytic residues [active] 1208658004861 metal binding site [ion binding]; metal-binding site 1208658004862 homodimer binding site [polypeptide binding]; other site 1208658004863 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1208658004864 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 1208658004865 NAD(P) binding site [chemical binding]; other site 1208658004866 active site 1208658004867 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208658004868 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658004869 DNA-binding site [nucleotide binding]; DNA binding site 1208658004870 UTRA domain; Region: UTRA; pfam07702 1208658004871 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1208658004872 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1208658004873 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1208658004874 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1208658004875 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1208658004876 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1208658004877 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1208658004878 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 1208658004879 carboxyltransferase (CT) interaction site; other site 1208658004880 biotinylation site [posttranslational modification]; other site 1208658004881 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1208658004882 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1208658004883 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1208658004884 CoA binding domain; Region: CoA_binding_2; pfam13380 1208658004885 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1208658004886 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208658004887 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1208658004888 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208658004889 DctM-like transporters; Region: DctM; pfam06808 1208658004890 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208658004891 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208658004892 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 1208658004893 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1208658004894 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208658004895 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 1208658004896 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 1208658004897 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658004898 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658004899 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 1208658004900 putative effector binding pocket; other site 1208658004901 dimerization interface [polypeptide binding]; other site 1208658004902 EamA-like transporter family; Region: EamA; pfam00892 1208658004903 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 1208658004904 [2Fe-2S] cluster binding site [ion binding]; other site 1208658004905 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 1208658004906 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1208658004907 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1208658004908 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1208658004909 Cupin domain; Region: Cupin_2; pfam07883 1208658004910 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 1208658004911 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1208658004912 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 1208658004913 iron-sulfur cluster [ion binding]; other site 1208658004914 [2Fe-2S] cluster binding site [ion binding]; other site 1208658004915 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 1208658004916 putative alpha subunit interface [polypeptide binding]; other site 1208658004917 putative active site [active] 1208658004918 putative substrate binding site [chemical binding]; other site 1208658004919 Fe binding site [ion binding]; other site 1208658004920 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208658004921 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 1208658004922 putative ligand binding site [chemical binding]; other site 1208658004923 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 1208658004924 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658004925 TM-ABC transporter signature motif; other site 1208658004926 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658004927 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 1208658004928 TM-ABC transporter signature motif; other site 1208658004929 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658004930 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658004931 Walker A/P-loop; other site 1208658004932 ATP binding site [chemical binding]; other site 1208658004933 Q-loop/lid; other site 1208658004934 ABC transporter signature motif; other site 1208658004935 Walker B; other site 1208658004936 D-loop; other site 1208658004937 H-loop/switch region; other site 1208658004938 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658004939 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658004940 Walker A/P-loop; other site 1208658004941 ATP binding site [chemical binding]; other site 1208658004942 Q-loop/lid; other site 1208658004943 ABC transporter signature motif; other site 1208658004944 Walker B; other site 1208658004945 D-loop; other site 1208658004946 H-loop/switch region; other site 1208658004947 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658004948 NAD(P) binding site [chemical binding]; other site 1208658004949 active site 1208658004950 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1208658004951 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1208658004952 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658004953 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658004954 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658004955 DNA-binding site [nucleotide binding]; DNA binding site 1208658004956 FCD domain; Region: FCD; pfam07729 1208658004957 thiamine pyrophosphate protein; Validated; Region: PRK08199 1208658004958 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208658004959 PYR/PP interface [polypeptide binding]; other site 1208658004960 dimer interface [polypeptide binding]; other site 1208658004961 TPP binding site [chemical binding]; other site 1208658004962 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208658004963 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 1208658004964 TPP-binding site [chemical binding]; other site 1208658004965 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658004966 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658004967 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658004968 active site 1208658004969 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 1208658004970 L-aspartate oxidase; Provisional; Region: PRK06175 1208658004971 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1208658004972 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208658004973 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658004974 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 1208658004975 dimerization interface [polypeptide binding]; other site 1208658004976 substrate binding pocket [chemical binding]; other site 1208658004977 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658004978 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658004979 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 1208658004980 homotrimer interaction site [polypeptide binding]; other site 1208658004981 putative active site [active] 1208658004982 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 1208658004983 homotrimer interaction site [polypeptide binding]; other site 1208658004984 putative active site [active] 1208658004985 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 1208658004986 homotrimer interaction site [polypeptide binding]; other site 1208658004987 putative active site [active] 1208658004988 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1208658004989 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 1208658004990 FMN binding site [chemical binding]; other site 1208658004991 active site 1208658004992 substrate binding site [chemical binding]; other site 1208658004993 catalytic residue [active] 1208658004994 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658004995 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658004996 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 1208658004997 putative effector binding pocket; other site 1208658004998 dimerization interface [polypeptide binding]; other site 1208658004999 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 1208658005000 Type III secretion needle MxiH like; Region: MxiH; pfam09392 1208658005001 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 1208658005002 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 1208658005003 FHIPEP family; Region: FHIPEP; pfam00771 1208658005004 type III secretion chaperone SycN; Region: type_III_SycN; TIGR02503 1208658005005 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 1208658005006 type III secretion effector delivery regulator, TyeA family; Region: type_III_tyeA; TIGR02511 1208658005007 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; cl09869 1208658005008 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 1208658005009 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 1208658005010 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 1208658005011 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 1208658005012 binding surface 1208658005013 TPR motif; other site 1208658005014 Type III secretion needle MxiH like; Region: MxiH; pfam09392 1208658005015 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 1208658005016 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 1208658005017 Flagellar assembly protein FliH; Region: FliH; pfam02108 1208658005018 type III secretion system ATPase; Provisional; Region: PRK06936 1208658005019 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1208658005020 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 1208658005021 Walker A motif/ATP binding site; other site 1208658005022 Walker B motif; other site 1208658005023 Type III secretion protein YscO; Region: YscO; pfam07321 1208658005024 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 1208658005025 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1208658005026 type III secretion system protein YscR; Provisional; Region: PRK12797 1208658005027 type III secretion protein, HrpO family; Region: fliQ_rel_III; TIGR01403 1208658005028 type III secretion protein SpaR/YscT/HrcT; Region: fliR_like_III; TIGR01401 1208658005029 type III secretion protein, YscU/HrpY family; Region: FlhB_rel_III; TIGR01404 1208658005030 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1208658005031 Tir chaperone protein (CesT) family; Region: CesT; cl08444 1208658005032 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 1208658005033 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1208658005034 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1208658005035 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1208658005036 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1208658005037 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208658005039 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1208658005040 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1208658005041 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1208658005042 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 1208658005043 dimerization interface [polypeptide binding]; other site 1208658005044 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1208658005045 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1208658005046 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 1208658005047 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208658005048 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1208658005049 alanine racemase; Reviewed; Region: alr; PRK00053 1208658005050 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1208658005051 catalytic residue [active] 1208658005052 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1208658005053 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1208658005054 ATP binding site [chemical binding]; other site 1208658005055 Mg2+ binding site [ion binding]; other site 1208658005056 G-X-G motif; other site 1208658005057 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1208658005058 anti sigma factor interaction site; other site 1208658005059 regulatory phosphorylation site [posttranslational modification]; other site 1208658005060 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1208658005061 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 1208658005062 putative active site [active] 1208658005063 catalytic site [active] 1208658005064 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 1208658005065 putative active site [active] 1208658005066 catalytic site [active] 1208658005067 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 1208658005068 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208658005069 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658005070 threonine-phosphate decarboxylase; Provisional; Region: PRK08056 1208658005071 Predicted metalloprotease [General function prediction only]; Region: COG2321 1208658005072 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1208658005073 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1208658005074 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 1208658005075 Peptidase family M50; Region: Peptidase_M50; pfam02163 1208658005076 active site 1208658005077 putative substrate binding region [chemical binding]; other site 1208658005078 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1208658005079 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1208658005080 dimer interface [polypeptide binding]; other site 1208658005081 active site 1208658005082 catalytic residue [active] 1208658005083 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1208658005084 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1208658005085 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1208658005086 Cupin superfamily protein; Region: Cupin_4; pfam08007 1208658005087 Cupin-like domain; Region: Cupin_8; pfam13621 1208658005088 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1208658005089 MutS domain I; Region: MutS_I; pfam01624 1208658005090 MutS domain II; Region: MutS_II; pfam05188 1208658005091 MutS domain III; Region: MutS_III; pfam05192 1208658005092 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658005093 Walker A/P-loop; other site 1208658005094 ATP binding site [chemical binding]; other site 1208658005095 Q-loop/lid; other site 1208658005096 ABC transporter signature motif; other site 1208658005097 Walker B; other site 1208658005098 D-loop; other site 1208658005099 H-loop/switch region; other site 1208658005100 Dodecin; Region: Dodecin; pfam07311 1208658005101 Predicted flavoprotein [General function prediction only]; Region: COG0431 1208658005102 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1208658005103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 1208658005104 Imelysin; Region: Peptidase_M75; cl09159 1208658005105 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1208658005106 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 1208658005107 Imelysin; Region: Peptidase_M75; cl09159 1208658005108 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 1208658005109 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1208658005110 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1208658005111 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658005112 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1208658005113 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658005114 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658005115 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1208658005116 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1208658005117 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1208658005118 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 1208658005119 active site 1208658005120 dimerization interface [polypeptide binding]; other site 1208658005121 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1208658005122 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1208658005123 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 1208658005124 Transporter associated domain; Region: CorC_HlyC; smart01091 1208658005125 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1208658005126 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1208658005127 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1208658005128 putative active site [active] 1208658005129 putative metal binding site [ion binding]; other site 1208658005130 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 1208658005131 substrate binding site [chemical binding]; other site 1208658005132 TPR repeat; Region: TPR_11; pfam13414 1208658005133 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 1208658005134 binding surface 1208658005135 TPR motif; other site 1208658005136 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1208658005137 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1208658005138 active site 1208658005139 HIGH motif; other site 1208658005140 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1208658005141 KMSKS motif; other site 1208658005142 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1208658005143 tRNA binding surface [nucleotide binding]; other site 1208658005144 anticodon binding site; other site 1208658005145 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1208658005146 endonuclease III; Region: ENDO3c; smart00478 1208658005147 minor groove reading motif; other site 1208658005148 helix-hairpin-helix signature motif; other site 1208658005149 substrate binding pocket [chemical binding]; other site 1208658005150 active site 1208658005151 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1208658005152 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1208658005153 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 1208658005154 TilS substrate binding domain; Region: TilS; pfam09179 1208658005155 aspartate kinase; Reviewed; Region: PRK06635 1208658005156 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 1208658005157 putative nucleotide binding site [chemical binding]; other site 1208658005158 putative catalytic residues [active] 1208658005159 putative Mg ion binding site [ion binding]; other site 1208658005160 putative aspartate binding site [chemical binding]; other site 1208658005161 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 1208658005162 putative allosteric regulatory site; other site 1208658005163 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 1208658005164 putative allosteric regulatory residue; other site 1208658005165 Cupin domain; Region: Cupin_2; pfam07883 1208658005166 NIPSNAP; Region: NIPSNAP; pfam07978 1208658005167 3-hydroxyacyl-CoA dehydrogenase; Validated; Region: PRK06129 1208658005168 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1208658005169 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208658005170 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1208658005171 DctM-like transporters; Region: DctM; pfam06808 1208658005172 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208658005173 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208658005174 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658005175 pyrimidine utilization protein D; Region: RutD; TIGR03611 1208658005176 putative L-aspartate dehydrogenase; Provisional; Region: PRK13301 1208658005177 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1208658005178 Domain of unknown function DUF108; Region: DUF108; pfam01958 1208658005179 short chain dehydrogenase; Provisional; Region: PRK06138 1208658005180 classical (c) SDRs; Region: SDR_c; cd05233 1208658005181 NAD(P) binding site [chemical binding]; other site 1208658005182 active site 1208658005183 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658005184 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658005185 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658005186 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1208658005187 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 1208658005188 dimerization interface [polypeptide binding]; other site 1208658005189 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1208658005190 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1208658005191 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1208658005192 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1208658005193 active site 1208658005194 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 1208658005195 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658005196 dimer interface [polypeptide binding]; other site 1208658005197 conserved gate region; other site 1208658005198 putative PBP binding loops; other site 1208658005199 ABC-ATPase subunit interface; other site 1208658005200 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1208658005201 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658005202 dimer interface [polypeptide binding]; other site 1208658005203 conserved gate region; other site 1208658005204 putative PBP binding loops; other site 1208658005205 ABC-ATPase subunit interface; other site 1208658005206 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1208658005207 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658005208 Walker A/P-loop; other site 1208658005209 ATP binding site [chemical binding]; other site 1208658005210 Q-loop/lid; other site 1208658005211 ABC transporter signature motif; other site 1208658005212 Walker B; other site 1208658005213 D-loop; other site 1208658005214 H-loop/switch region; other site 1208658005215 TOBE domain; Region: TOBE_2; pfam08402 1208658005216 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1208658005217 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_family; cd02803 1208658005218 active site 1208658005219 FMN binding site [chemical binding]; other site 1208658005220 substrate binding site [chemical binding]; other site 1208658005221 putative catalytic residue [active] 1208658005222 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658005223 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658005224 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1208658005225 CoA binding domain; Region: CoA_binding_2; pfam13380 1208658005226 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1208658005227 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1208658005228 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658005229 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 1208658005230 homotrimer interaction site [polypeptide binding]; other site 1208658005231 putative active site [active] 1208658005232 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1208658005233 active site 1208658005234 catalytic site [active] 1208658005235 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1208658005236 active site 1208658005237 catalytic site [active] 1208658005238 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 1208658005239 active site 2 [active] 1208658005240 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 1208658005241 dimerization interface [polypeptide binding]; other site 1208658005242 putative DNA binding site [nucleotide binding]; other site 1208658005243 putative Zn2+ binding site [ion binding]; other site 1208658005244 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1208658005245 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 1208658005246 FMN binding site [chemical binding]; other site 1208658005247 active site 1208658005248 substrate binding site [chemical binding]; other site 1208658005249 catalytic residue [active] 1208658005250 N-glycosyltransferase; Provisional; Region: PRK11204 1208658005251 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1208658005252 DXD motif; other site 1208658005253 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 1208658005254 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 1208658005255 putative active site [active] 1208658005256 putative metal binding site [ion binding]; other site 1208658005257 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1208658005258 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 1208658005259 TPR motif; other site 1208658005260 TPR repeat; Region: TPR_11; pfam13414 1208658005261 binding surface 1208658005262 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1208658005263 MarR family; Region: MarR_2; cl17246 1208658005264 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1208658005265 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208658005266 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 1208658005267 putative ligand binding site [chemical binding]; other site 1208658005268 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 1208658005269 TM-ABC transporter signature motif; other site 1208658005270 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 1208658005271 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658005272 TM-ABC transporter signature motif; other site 1208658005273 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658005274 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658005275 Walker A/P-loop; other site 1208658005276 ATP binding site [chemical binding]; other site 1208658005277 Q-loop/lid; other site 1208658005278 ABC transporter signature motif; other site 1208658005279 Walker B; other site 1208658005280 D-loop; other site 1208658005281 H-loop/switch region; other site 1208658005282 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658005283 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658005284 Walker A/P-loop; other site 1208658005285 ATP binding site [chemical binding]; other site 1208658005286 Q-loop/lid; other site 1208658005287 ABC transporter signature motif; other site 1208658005288 Walker B; other site 1208658005289 D-loop; other site 1208658005290 H-loop/switch region; other site 1208658005291 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1208658005292 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1208658005293 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1208658005294 xanthine dehydrogenase E subunit; Region: pucE; TIGR03198 1208658005295 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 1208658005296 catalytic loop [active] 1208658005297 iron binding site [ion binding]; other site 1208658005298 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1208658005299 hypothetical protein; Provisional; Region: PRK06847 1208658005300 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1208658005301 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1208658005302 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208658005303 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1208658005304 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 1208658005305 Isochorismatase family; Region: Isochorismatase; pfam00857 1208658005306 catalytic triad [active] 1208658005307 conserved cis-peptide bond; other site 1208658005309 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 1208658005310 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 1208658005311 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 1208658005312 FAD binding pocket [chemical binding]; other site 1208658005313 FAD binding motif [chemical binding]; other site 1208658005314 phosphate binding motif [ion binding]; other site 1208658005315 beta-alpha-beta structure motif; other site 1208658005316 NAD binding pocket [chemical binding]; other site 1208658005317 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1208658005318 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 1208658005319 N-terminal plug; other site 1208658005320 ligand-binding site [chemical binding]; other site 1208658005321 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1208658005322 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1208658005323 MarR family; Region: MarR_2; cl17246 1208658005324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208658005325 Sulfatase; Region: Sulfatase; cl17466 1208658005326 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1208658005327 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1208658005328 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1208658005329 acyl-activating enzyme (AAE) consensus motif; other site 1208658005330 putative AMP binding site [chemical binding]; other site 1208658005331 putative active site [active] 1208658005332 putative CoA binding site [chemical binding]; other site 1208658005333 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 1208658005334 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 1208658005335 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 1208658005336 dimer interface [polypeptide binding]; other site 1208658005337 active site 1208658005338 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1208658005339 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1208658005340 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208658005341 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208658005342 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658005343 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 1208658005344 substrate binding site [chemical binding]; other site 1208658005345 oxyanion hole (OAH) forming residues; other site 1208658005346 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 1208658005347 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 1208658005348 substrate binding site [chemical binding]; other site 1208658005349 oxyanion hole (OAH) forming residues; other site 1208658005350 trimer interface [polypeptide binding]; other site 1208658005351 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1208658005352 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1208658005353 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208658005354 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 1208658005355 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 1208658005356 dimer interface [polypeptide binding]; other site 1208658005357 active site 1208658005358 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1208658005359 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658005360 active site 1208658005361 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1208658005362 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658005363 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658005364 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1208658005365 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 1208658005366 DNA binding residues [nucleotide binding] 1208658005367 dimerization interface [polypeptide binding]; other site 1208658005368 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1208658005369 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 1208658005370 DNA binding residues [nucleotide binding] 1208658005371 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 1208658005372 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1208658005373 active site 1208658005374 substrate binding site [chemical binding]; other site 1208658005375 metal binding site [ion binding]; metal-binding site 1208658005376 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1208658005377 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1208658005378 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 1208658005379 dimer interface [polypeptide binding]; other site 1208658005380 active site 1208658005381 serine O-acetyltransferase; Region: cysE; TIGR01172 1208658005382 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 1208658005383 trimer interface [polypeptide binding]; other site 1208658005384 active site 1208658005385 substrate binding site [chemical binding]; other site 1208658005386 CoA binding site [chemical binding]; other site 1208658005387 NAD-dependent deacetylase; Provisional; Region: PRK05333 1208658005388 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 1208658005389 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 1208658005390 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1208658005391 active site 1208658005392 putative lithium-binding site [ion binding]; other site 1208658005393 substrate binding site [chemical binding]; other site 1208658005394 succinic semialdehyde dehydrogenase; Region: PLN02278 1208658005395 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1208658005396 tetramerization interface [polypeptide binding]; other site 1208658005397 NAD(P) binding site [chemical binding]; other site 1208658005398 catalytic residues [active] 1208658005399 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 1208658005400 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 1208658005401 inhibitor-cofactor binding pocket; inhibition site 1208658005402 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658005403 catalytic residue [active] 1208658005404 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 1208658005405 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658005406 DNA-binding site [nucleotide binding]; DNA binding site 1208658005407 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 1208658005408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658005409 homodimer interface [polypeptide binding]; other site 1208658005410 catalytic residue [active] 1208658005411 Protein of unknown function DUF72; Region: DUF72; pfam01904 1208658005412 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1208658005413 Part of AAA domain; Region: AAA_19; pfam13245 1208658005414 Family description; Region: UvrD_C_2; pfam13538 1208658005415 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1208658005416 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 1208658005417 oligomer interface [polypeptide binding]; other site 1208658005418 metal binding site [ion binding]; metal-binding site 1208658005419 metal binding site [ion binding]; metal-binding site 1208658005420 putative Cl binding site [ion binding]; other site 1208658005421 basic sphincter; other site 1208658005422 hydrophobic gate; other site 1208658005423 periplasmic entrance; other site 1208658005424 Staphylococcal nuclease homologues; Region: SNc; smart00318 1208658005425 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1208658005426 Catalytic site; other site 1208658005427 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 1208658005428 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1208658005429 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208658005430 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658005431 dimer interface [polypeptide binding]; other site 1208658005432 conserved gate region; other site 1208658005433 putative PBP binding loops; other site 1208658005434 ABC-ATPase subunit interface; other site 1208658005435 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1208658005436 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658005437 dimer interface [polypeptide binding]; other site 1208658005438 conserved gate region; other site 1208658005439 putative PBP binding loops; other site 1208658005440 ABC-ATPase subunit interface; other site 1208658005441 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1208658005442 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658005443 Walker A/P-loop; other site 1208658005444 ATP binding site [chemical binding]; other site 1208658005445 Q-loop/lid; other site 1208658005446 ABC transporter signature motif; other site 1208658005447 Walker B; other site 1208658005448 D-loop; other site 1208658005449 H-loop/switch region; other site 1208658005450 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658005451 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658005452 Walker A/P-loop; other site 1208658005453 ATP binding site [chemical binding]; other site 1208658005454 Q-loop/lid; other site 1208658005455 ABC transporter signature motif; other site 1208658005456 Walker B; other site 1208658005457 D-loop; other site 1208658005458 H-loop/switch region; other site 1208658005459 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658005460 MarR family; Region: MarR_2; pfam12802 1208658005461 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1208658005462 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1208658005463 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1208658005464 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1208658005465 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1208658005466 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 1208658005467 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1208658005468 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1208658005469 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1208658005470 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1208658005471 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1208658005472 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1208658005473 AAA domain; Region: AAA_31; pfam13614 1208658005474 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1208658005475 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1208658005476 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 1208658005477 ATP binding site [chemical binding]; other site 1208658005478 Walker A motif; other site 1208658005479 hexamer interface [polypeptide binding]; other site 1208658005480 Walker B motif; other site 1208658005481 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1208658005482 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1208658005483 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1208658005484 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1208658005485 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1208658005486 TPR motif; other site 1208658005487 binding surface 1208658005488 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 1208658005489 Predicted membrane protein [Function unknown]; Region: COG4655 1208658005490 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 1208658005491 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1208658005492 Walker A motif; other site 1208658005493 ATP binding site [chemical binding]; other site 1208658005494 Walker B motif; other site 1208658005495 arginine finger; other site 1208658005496 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1208658005497 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 1208658005498 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 1208658005499 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1208658005500 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208658005501 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 1208658005502 DNA binding residues [nucleotide binding] 1208658005503 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1208658005504 dinuclear metal binding motif [ion binding]; other site 1208658005505 Cytochrome c; Region: Cytochrom_C; cl11414 1208658005506 elongation factor P; Validated; Region: PRK00529 1208658005507 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1208658005508 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 1208658005509 RNA binding site [nucleotide binding]; other site 1208658005510 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 1208658005511 RNA binding site [nucleotide binding]; other site 1208658005512 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 1208658005513 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 1208658005514 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 1208658005515 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1208658005516 putative active site [active] 1208658005517 metal binding site [ion binding]; metal-binding site 1208658005518 aconitate hydratase; Provisional; Region: acnA; PRK12881 1208658005519 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1208658005520 substrate binding site [chemical binding]; other site 1208658005521 ligand binding site [chemical binding]; other site 1208658005522 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 1208658005523 substrate binding site [chemical binding]; other site 1208658005524 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 1208658005525 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1208658005526 catalytic residue [active] 1208658005527 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1208658005528 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 1208658005529 N-terminal plug; other site 1208658005530 ligand-binding site [chemical binding]; other site 1208658005531 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1208658005532 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 1208658005533 motif II; other site 1208658005534 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1208658005535 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1208658005536 ligand binding site [chemical binding]; other site 1208658005537 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 1208658005538 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1208658005539 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 1208658005540 substrate binding site [chemical binding]; other site 1208658005541 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1208658005542 substrate binding site [chemical binding]; other site 1208658005543 ligand binding site [chemical binding]; other site 1208658005544 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1208658005545 active site 1208658005546 catalytic site [active] 1208658005547 substrate binding site [chemical binding]; other site 1208658005548 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 1208658005549 homodimer interface [polypeptide binding]; other site 1208658005550 chemical substrate binding site [chemical binding]; other site 1208658005551 oligomer interface [polypeptide binding]; other site 1208658005552 metal binding site [ion binding]; metal-binding site 1208658005553 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1208658005554 YciI-like protein; Reviewed; Region: PRK12866 1208658005555 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1208658005556 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1208658005557 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 1208658005558 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1208658005559 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658005560 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658005561 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1208658005562 putative dimerization interface [polypeptide binding]; other site 1208658005563 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1208658005564 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1208658005565 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1208658005566 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1208658005567 Sodium Bile acid symporter family; Region: SBF; pfam01758 1208658005568 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208658005569 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658005570 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 1208658005571 dimerization interface [polypeptide binding]; other site 1208658005572 hypothetical protein; Provisional; Region: PRK01842 1208658005573 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1208658005574 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 1208658005575 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1208658005576 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208658005577 amidase; Provisional; Region: PRK07487 1208658005578 Amidase; Region: Amidase; cl11426 1208658005579 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1208658005580 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1208658005581 putative catalytic cysteine [active] 1208658005582 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1208658005583 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1208658005584 Lipopolysaccharide-assembly; Region: LptE; pfam04390 1208658005585 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1208658005586 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1208658005587 HIGH motif; other site 1208658005588 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1208658005589 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1208658005590 active site 1208658005591 KMSKS motif; other site 1208658005592 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1208658005593 tRNA binding surface [nucleotide binding]; other site 1208658005594 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1208658005595 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 1208658005596 putative substrate translocation pore; other site 1208658005597 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1208658005598 MarR family; Region: MarR_2; cl17246 1208658005599 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; cl00257 1208658005600 IHF - DNA interface [nucleotide binding]; other site 1208658005601 IHF dimer interface [polypeptide binding]; other site 1208658005602 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1208658005603 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1208658005604 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1208658005605 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 1208658005606 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1208658005607 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1208658005608 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 1208658005609 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1208658005610 putative substrate translocation pore; other site 1208658005611 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 1208658005612 Methyltransferase domain; Region: Methyltransf_25; pfam13649 1208658005613 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1208658005614 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1208658005615 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658005616 dimer interface [polypeptide binding]; other site 1208658005617 conserved gate region; other site 1208658005618 putative PBP binding loops; other site 1208658005619 ABC-ATPase subunit interface; other site 1208658005620 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1208658005621 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1208658005622 Walker A/P-loop; other site 1208658005623 ATP binding site [chemical binding]; other site 1208658005624 Q-loop/lid; other site 1208658005625 ABC transporter signature motif; other site 1208658005626 Walker B; other site 1208658005627 D-loop; other site 1208658005628 H-loop/switch region; other site 1208658005629 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 1208658005630 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1208658005631 active site 1 [active] 1208658005632 dimer interface [polypeptide binding]; other site 1208658005633 hexamer interface [polypeptide binding]; other site 1208658005634 active site 2 [active] 1208658005635 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1208658005636 dimer interface [polypeptide binding]; other site 1208658005637 hexamer interface [polypeptide binding]; other site 1208658005638 active site 2 [active] 1208658005639 beta-ketothiolase; Provisional; Region: PRK09051 1208658005640 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 1208658005641 dimer interface [polypeptide binding]; other site 1208658005642 active site 1208658005643 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 1208658005644 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1208658005645 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658005646 DNA-binding site [nucleotide binding]; DNA binding site 1208658005647 FCD domain; Region: FCD; pfam07729 1208658005648 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 1208658005649 enoyl-CoA hydratase; Provisional; Region: PRK06127 1208658005650 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 1208658005651 substrate binding site [chemical binding]; other site 1208658005652 oxyanion hole (OAH) forming residues; other site 1208658005653 trimer interface [polypeptide binding]; other site 1208658005654 malonyl-CoA synthase; Validated; Region: PRK07514 1208658005655 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 1208658005656 acyl-activating enzyme (AAE) consensus motif; other site 1208658005657 active site 1208658005658 AMP binding site [chemical binding]; other site 1208658005659 CoA binding site [chemical binding]; other site 1208658005660 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658005661 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1208658005662 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 1208658005663 E-class dimer interface [polypeptide binding]; other site 1208658005664 P-class dimer interface [polypeptide binding]; other site 1208658005665 active site 1208658005666 Cu2+ binding site [ion binding]; other site 1208658005667 Zn2+ binding site [ion binding]; other site 1208658005668 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 1208658005669 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1208658005670 zinc binding site [ion binding]; other site 1208658005671 putative ligand binding site [chemical binding]; other site 1208658005672 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658005673 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 1208658005674 TM-ABC transporter signature motif; other site 1208658005675 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1208658005676 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658005677 Walker A/P-loop; other site 1208658005678 ATP binding site [chemical binding]; other site 1208658005679 Q-loop/lid; other site 1208658005680 ABC transporter signature motif; other site 1208658005681 Walker B; other site 1208658005682 D-loop; other site 1208658005683 H-loop/switch region; other site 1208658005684 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1208658005685 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 1208658005686 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1208658005687 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1208658005688 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1208658005689 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1208658005690 Patatin phospholipase; Region: DUF3734; pfam12536 1208658005691 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208658005692 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 1208658005693 DNA binding site [nucleotide binding] 1208658005694 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1208658005695 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208658005696 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1208658005697 Protein export membrane protein; Region: SecD_SecF; cl14618 1208658005698 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1208658005699 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 1208658005700 active site 1208658005701 hydrophilic channel; other site 1208658005702 dimerization interface [polypeptide binding]; other site 1208658005703 catalytic residues [active] 1208658005704 active site lid [active] 1208658005705 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1208658005706 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1208658005707 beta-hexosaminidase; Provisional; Region: PRK05337 1208658005708 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1208658005709 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1208658005710 active site 1208658005711 catalytic site [active] 1208658005712 putative DNA binding site [nucleotide binding]; other site 1208658005713 GIY-YIG motif/motif A; other site 1208658005714 metal binding site [ion binding]; metal-binding site 1208658005715 UvrB/uvrC motif; Region: UVR; pfam02151 1208658005716 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1208658005717 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1208658005718 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 1208658005719 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208658005720 putative substrate translocation pore; other site 1208658005721 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1208658005722 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1208658005723 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1208658005724 isocitrate lyase; Provisional; Region: PRK15063 1208658005725 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 1208658005726 tetramer interface [polypeptide binding]; other site 1208658005727 active site 1208658005728 Mg2+/Mn2+ binding site [ion binding]; other site 1208658005729 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1208658005730 LrgA family; Region: LrgA; pfam03788 1208658005731 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1208658005732 AAA domain; Region: AAA_26; pfam13500 1208658005733 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1208658005734 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 1208658005735 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 1208658005736 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1208658005737 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208658005738 catalytic residue [active] 1208658005739 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 1208658005740 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 1208658005741 inhibitor-cofactor binding pocket; inhibition site 1208658005742 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658005743 catalytic residue [active] 1208658005744 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1208658005745 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1208658005746 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1208658005747 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 1208658005748 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1208658005749 Low-spin heme binding site [chemical binding]; other site 1208658005750 Putative water exit pathway; other site 1208658005751 Binuclear center (active site) [active] 1208658005752 Putative proton exit pathway; other site 1208658005753 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1208658005754 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1208658005755 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 1208658005756 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1208658005757 Cytochrome c; Region: Cytochrom_C; pfam00034 1208658005758 Cytochrome c; Region: Cytochrom_C; pfam00034 1208658005759 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1208658005760 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1208658005761 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1208658005762 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1208658005763 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1208658005764 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1208658005765 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208658005766 Coenzyme A binding pocket [chemical binding]; other site 1208658005767 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1208658005768 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1208658005769 Walker A/P-loop; other site 1208658005770 ATP binding site [chemical binding]; other site 1208658005771 Q-loop/lid; other site 1208658005772 ABC transporter signature motif; other site 1208658005773 Walker B; other site 1208658005774 D-loop; other site 1208658005775 H-loop/switch region; other site 1208658005776 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1208658005777 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1208658005778 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1208658005779 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1208658005780 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1208658005781 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1208658005782 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208658005783 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208658005784 metal binding site [ion binding]; metal-binding site 1208658005785 active site 1208658005786 I-site; other site 1208658005787 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 1208658005788 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1208658005789 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658005790 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 1208658005791 putative dimerization interface [polypeptide binding]; other site 1208658005792 putative substrate binding pocket [chemical binding]; other site 1208658005793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1208658005794 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 1208658005795 dimer interface [polypeptide binding]; other site 1208658005796 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208658005797 metal binding site [ion binding]; metal-binding site 1208658005798 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208658005799 EamA-like transporter family; Region: EamA; pfam00892 1208658005800 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658005801 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658005802 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 1208658005803 dimerization interface [polypeptide binding]; other site 1208658005804 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208658005805 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208658005806 Walker A/P-loop; other site 1208658005807 ATP binding site [chemical binding]; other site 1208658005808 Q-loop/lid; other site 1208658005809 ABC transporter signature motif; other site 1208658005810 Walker B; other site 1208658005811 D-loop; other site 1208658005812 H-loop/switch region; other site 1208658005813 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658005814 dimer interface [polypeptide binding]; other site 1208658005815 conserved gate region; other site 1208658005816 putative PBP binding loops; other site 1208658005817 ABC-ATPase subunit interface; other site 1208658005818 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1208658005819 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208658005820 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658005821 dimer interface [polypeptide binding]; other site 1208658005822 conserved gate region; other site 1208658005823 putative PBP binding loops; other site 1208658005824 ABC-ATPase subunit interface; other site 1208658005825 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1208658005826 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 1208658005827 substrate binding pocket [chemical binding]; other site 1208658005828 membrane-bound complex binding site; other site 1208658005829 hinge residues; other site 1208658005830 aspartate aminotransferase; Provisional; Region: PRK06107 1208658005831 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 1208658005832 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658005833 homodimer interface [polypeptide binding]; other site 1208658005834 catalytic residue [active] 1208658005835 hypothetical protein; Validated; Region: PRK06201 1208658005836 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1208658005837 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1208658005838 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 1208658005839 NlpE N-terminal domain; Region: NlpE; pfam04170 1208658005840 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1208658005841 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1208658005842 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 1208658005843 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208658005844 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1208658005845 DNA binding residues [nucleotide binding] 1208658005846 SnoaL-like domain; Region: SnoaL_2; pfam12680 1208658005847 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1208658005848 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 1208658005849 dimer interface [polypeptide binding]; other site 1208658005850 ADP-ribose binding site [chemical binding]; other site 1208658005851 active site 1208658005852 nudix motif; other site 1208658005853 metal binding site [ion binding]; metal-binding site 1208658005854 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 1208658005855 catalytic loop [active] 1208658005856 iron binding site [ion binding]; other site 1208658005857 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1208658005858 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 1208658005859 ligand binding site [chemical binding]; other site 1208658005860 flexible hinge region; other site 1208658005861 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 1208658005862 putative switch regulator; other site 1208658005863 non-specific DNA interactions [nucleotide binding]; other site 1208658005864 DNA binding site [nucleotide binding] 1208658005865 sequence specific DNA binding site [nucleotide binding]; other site 1208658005866 putative cAMP binding site [chemical binding]; other site 1208658005867 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1208658005868 Clp amino terminal domain; Region: Clp_N; pfam02861 1208658005869 Clp amino terminal domain; Region: Clp_N; pfam02861 1208658005870 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 1208658005871 Walker A motif; other site 1208658005872 ATP binding site [chemical binding]; other site 1208658005873 Walker B motif; other site 1208658005874 arginine finger; other site 1208658005875 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 1208658005876 Walker A motif; other site 1208658005877 ATP binding site [chemical binding]; other site 1208658005878 Walker B motif; other site 1208658005879 arginine finger; other site 1208658005880 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1208658005881 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208658005882 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658005884 hypothetical protein; Provisional; Region: PRK02399 1208658005885 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 1208658005886 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 1208658005887 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 1208658005888 putative hydrophobic ligand binding site [chemical binding]; other site 1208658005889 protein interface [polypeptide binding]; other site 1208658005890 gate; other site 1208658005891 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658005892 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658005893 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1208658005894 putative dimerization interface [polypeptide binding]; other site 1208658005895 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1208658005896 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 1208658005897 active site 1208658005898 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 1208658005899 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658005900 Flavodoxin; Region: Flavodoxin_1; pfam00258 1208658005901 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like1; cd06200 1208658005902 FAD binding pocket [chemical binding]; other site 1208658005903 FAD binding motif [chemical binding]; other site 1208658005904 catalytic residues [active] 1208658005905 NAD binding pocket [chemical binding]; other site 1208658005906 phosphate binding motif [ion binding]; other site 1208658005907 beta-alpha-beta structure motif; other site 1208658005908 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1208658005909 ApbE family; Region: ApbE; pfam02424 1208658005910 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 1208658005911 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1208658005912 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 1208658005913 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1208658005914 nodulation ABC transporter NodI; Provisional; Region: PRK13537 1208658005915 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1208658005916 Walker A/P-loop; other site 1208658005917 ATP binding site [chemical binding]; other site 1208658005918 Q-loop/lid; other site 1208658005919 ABC transporter signature motif; other site 1208658005920 Walker B; other site 1208658005921 D-loop; other site 1208658005922 H-loop/switch region; other site 1208658005923 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1208658005924 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1208658005925 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1208658005926 chromosome condensation membrane protein; Provisional; Region: PRK14196 1208658005927 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1208658005928 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 1208658005929 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1208658005930 active site lid residues [active] 1208658005931 substrate binding pocket [chemical binding]; other site 1208658005932 catalytic residues [active] 1208658005933 substrate-Mg2+ binding site; other site 1208658005934 aspartate-rich region 1; other site 1208658005935 aspartate-rich region 2; other site 1208658005936 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1208658005937 active site lid residues [active] 1208658005938 substrate binding pocket [chemical binding]; other site 1208658005939 catalytic residues [active] 1208658005940 substrate-Mg2+ binding site; other site 1208658005941 aspartate-rich region 1; other site 1208658005942 aspartate-rich region 2; other site 1208658005943 alanine racemase; Reviewed; Region: alr; PRK00053 1208658005944 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1208658005945 active site 1208658005946 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1208658005947 substrate binding site [chemical binding]; other site 1208658005948 catalytic residues [active] 1208658005949 dimer interface [polypeptide binding]; other site 1208658005950 short chain dehydrogenase; Provisional; Region: PRK07577 1208658005951 classical (c) SDRs; Region: SDR_c; cd05233 1208658005952 NAD(P) binding site [chemical binding]; other site 1208658005953 active site 1208658005954 RNA polymerase sigma factor; Provisional; Region: PRK12513 1208658005955 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208658005956 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 1208658005957 DNA binding residues [nucleotide binding] 1208658005958 von Willebrand factor; Region: vWF_A; pfam12450 1208658005959 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 1208658005960 VWA subgroup: 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...; Region: vWA_subgroup; cd01465 1208658005961 metal ion-dependent adhesion site (MIDAS); other site 1208658005962 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 1208658005963 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 1208658005964 DNA repair protein RadA; Provisional; Region: PRK11823 1208658005965 Walker A motif; other site 1208658005966 ATP binding site [chemical binding]; other site 1208658005967 Walker B motif; other site 1208658005968 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1208658005969 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1208658005970 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1208658005971 multidrug efflux protein; Reviewed; Region: PRK01766 1208658005972 cation binding site [ion binding]; other site 1208658005973 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1208658005974 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1208658005975 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 1208658005976 arylformamidase; Region: trp_arylform; TIGR03035 1208658005977 hypothetical protein; Reviewed; Region: PRK00024 1208658005978 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1208658005979 MPN+ (JAMM) motif; other site 1208658005980 Zinc-binding site [ion binding]; other site 1208658005981 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1208658005982 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1208658005983 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1208658005984 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1208658005985 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 1208658005986 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1208658005987 C-terminal domain interface [polypeptide binding]; other site 1208658005988 GSH binding site (G-site) [chemical binding]; other site 1208658005989 putative dimer interface [polypeptide binding]; other site 1208658005990 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1208658005991 dimer interface [polypeptide binding]; other site 1208658005992 N-terminal domain interface [polypeptide binding]; other site 1208658005993 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1208658005994 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1208658005995 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1208658005996 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 1208658005997 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1208658005998 Nitroreductase-like family 5. 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_5; cd02148 1208658005999 putative FMN binding site [chemical binding]; other site 1208658006000 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658006001 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658006002 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 1208658006003 putative effector binding pocket; other site 1208658006004 dimerization interface [polypeptide binding]; other site 1208658006005 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1208658006006 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1208658006007 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 1208658006008 RNA binding surface [nucleotide binding]; other site 1208658006009 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1208658006010 probable active site [active] 1208658006011 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1208658006012 Sm and related proteins; Region: Sm_like; cl00259 1208658006013 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1208658006014 putative oligomer interface [polypeptide binding]; other site 1208658006015 putative RNA binding site [nucleotide binding]; other site 1208658006016 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1208658006017 NusA N-terminal domain; Region: NusA_N; pfam08529 1208658006018 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 1208658006019 RNA binding site [nucleotide binding]; other site 1208658006020 homodimer interface [polypeptide binding]; other site 1208658006021 NusA-like KH domain; Region: KH_5; pfam13184 1208658006022 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 1208658006023 G-X-X-G motif; other site 1208658006024 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1208658006025 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1208658006026 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1208658006027 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1208658006028 translation initiation factor IF-2; Region: IF-2; TIGR00487 1208658006029 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1208658006030 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1208658006031 G1 box; other site 1208658006032 putative GEF interaction site [polypeptide binding]; other site 1208658006033 GTP/Mg2+ binding site [chemical binding]; other site 1208658006034 Switch I region; other site 1208658006035 G2 box; other site 1208658006036 G3 box; other site 1208658006037 Switch II region; other site 1208658006038 G4 box; other site 1208658006039 G5 box; other site 1208658006040 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 1208658006041 Translation-initiation factor 2; Region: IF-2; pfam11987 1208658006042 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 1208658006043 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1208658006044 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00020 1208658006045 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1208658006046 RNA binding site [nucleotide binding]; other site 1208658006047 active site 1208658006048 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1208658006049 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1208658006050 G1 box; other site 1208658006051 putative GEF interaction site [polypeptide binding]; other site 1208658006052 GTP/Mg2+ binding site [chemical binding]; other site 1208658006053 Switch I region; other site 1208658006054 G2 box; other site 1208658006055 G3 box; other site 1208658006056 Switch II region; other site 1208658006057 G4 box; other site 1208658006058 G5 box; other site 1208658006059 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 1208658006060 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 1208658006061 Aerolysin/Pertussis toxin (APT) domain; Region: APT; pfam03440 1208658006062 Pertussis toxin, subunit 2 and 3, C-terminal domain; Region: Pertussis_S2S3; pfam02918 1208658006063 subtilase cytotoxin subunit B-like protein; Provisional; Region: PRK15265; cl14664 1208658006064 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1208658006065 DNA polymerase I; Provisional; Region: PRK05755 1208658006066 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1208658006067 active site 1208658006068 metal binding site 1 [ion binding]; metal-binding site 1208658006069 putative 5' ssDNA interaction site; other site 1208658006070 metal binding site 3; metal-binding site 1208658006071 metal binding site 2 [ion binding]; metal-binding site 1208658006072 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1208658006073 putative DNA binding site [nucleotide binding]; other site 1208658006074 putative metal binding site [ion binding]; other site 1208658006075 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 1208658006076 active site 1208658006077 catalytic site [active] 1208658006078 substrate binding site [chemical binding]; other site 1208658006079 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1208658006080 active site 1208658006081 DNA binding site [nucleotide binding] 1208658006082 catalytic site [active] 1208658006083 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1208658006084 Dienelactone hydrolase family; Region: DLH; pfam01738 1208658006085 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1208658006086 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1208658006087 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1208658006088 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1208658006089 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1208658006090 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1208658006091 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1208658006092 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1208658006093 metal binding triad; other site 1208658006094 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1208658006095 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1208658006096 metal binding triad; other site 1208658006097 TIGR02099 family protein; Region: TIGR02099 1208658006098 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1208658006099 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1208658006100 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1208658006101 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 1208658006102 RNA binding site [nucleotide binding]; other site 1208658006103 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 1208658006104 multimer interface [polypeptide binding]; other site 1208658006105 Walker A motif; other site 1208658006106 ATP binding site [chemical binding]; other site 1208658006107 Walker B motif; other site 1208658006108 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 1208658006109 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1208658006110 catalytic residues [active] 1208658006111 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1208658006112 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 1208658006113 ATP binding site [chemical binding]; other site 1208658006114 Mg2+ binding site [ion binding]; other site 1208658006115 G-X-G motif; other site 1208658006116 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 1208658006117 anchoring element; other site 1208658006118 dimer interface [polypeptide binding]; other site 1208658006119 ATP binding site [chemical binding]; other site 1208658006120 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 1208658006121 active site 1208658006122 metal binding site [ion binding]; metal-binding site 1208658006123 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1208658006124 YcxB-like protein; Region: YcxB; pfam14317 1208658006125 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1208658006126 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 1208658006127 CAP-like domain; other site 1208658006128 active site 1208658006129 primary dimer interface [polypeptide binding]; other site 1208658006130 Protein of unknown function (DUF418); Region: DUF418; pfam04235 1208658006131 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208658006132 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208658006133 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1208658006134 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1208658006135 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1208658006136 hypothetical protein; Provisional; Region: PRK07483 1208658006137 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 1208658006138 inhibitor-cofactor binding pocket; inhibition site 1208658006139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658006140 catalytic residue [active] 1208658006141 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1208658006142 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1208658006143 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 1208658006144 putative active site [active] 1208658006145 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1208658006146 MarR family; Region: MarR; pfam01047 1208658006147 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208658006148 Coenzyme A binding pocket [chemical binding]; other site 1208658006149 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 1208658006150 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 1208658006151 inhibitor-cofactor binding pocket; inhibition site 1208658006152 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658006153 catalytic residue [active] 1208658006154 Ectoine synthase; Region: Ectoine_synth; pfam06339 1208658006155 ectoine hydroxylase; Region: ectoine_ThpD; TIGR02408 1208658006156 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 1208658006157 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 1208658006158 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1208658006159 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 1208658006160 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208658006161 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658006162 DNA-binding site [nucleotide binding]; DNA binding site 1208658006163 UTRA domain; Region: UTRA; pfam07702 1208658006164 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1208658006165 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1208658006166 MOSC domain; Region: MOSC; pfam03473 1208658006167 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1208658006168 tetramerization interface [polypeptide binding]; other site 1208658006169 active site 1208658006170 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1208658006171 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 1208658006172 catalytic loop [active] 1208658006173 iron binding site [ion binding]; other site 1208658006174 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 1208658006175 FAD binding pocket [chemical binding]; other site 1208658006176 FAD binding motif [chemical binding]; other site 1208658006177 phosphate binding motif [ion binding]; other site 1208658006178 beta-alpha-beta structure motif; other site 1208658006179 NAD binding pocket [chemical binding]; other site 1208658006180 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1208658006181 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1208658006182 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1208658006183 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1208658006184 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1208658006185 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658006186 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658006187 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1208658006188 putative dimerization interface [polypeptide binding]; other site 1208658006189 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1208658006190 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 1208658006191 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1208658006192 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208658006193 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658006194 dimer interface [polypeptide binding]; other site 1208658006195 conserved gate region; other site 1208658006196 putative PBP binding loops; other site 1208658006197 ABC-ATPase subunit interface; other site 1208658006198 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1208658006199 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658006200 dimer interface [polypeptide binding]; other site 1208658006201 conserved gate region; other site 1208658006202 putative PBP binding loops; other site 1208658006203 ABC-ATPase subunit interface; other site 1208658006204 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1208658006205 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658006206 Walker A/P-loop; other site 1208658006207 ATP binding site [chemical binding]; other site 1208658006208 Q-loop/lid; other site 1208658006209 ABC transporter signature motif; other site 1208658006210 Walker B; other site 1208658006211 D-loop; other site 1208658006212 H-loop/switch region; other site 1208658006213 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658006214 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658006215 Walker A/P-loop; other site 1208658006216 ATP binding site [chemical binding]; other site 1208658006217 Q-loop/lid; other site 1208658006218 ABC transporter signature motif; other site 1208658006219 Walker B; other site 1208658006220 D-loop; other site 1208658006221 H-loop/switch region; other site 1208658006222 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658006223 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208658006224 Amidase; Region: Amidase; pfam01425 1208658006225 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1208658006226 VirB7 interaction site; other site 1208658006227 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 1208658006228 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 1208658006229 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1208658006230 Type II/IV secretion system protein; Region: T2SE; pfam00437 1208658006231 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 1208658006232 Walker A motif; other site 1208658006233 ATP binding site [chemical binding]; other site 1208658006234 Walker B motif; other site 1208658006235 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1208658006236 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 1208658006237 motif 1; other site 1208658006238 active site 1208658006239 motif 2; other site 1208658006240 motif 3; other site 1208658006241 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1208658006242 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 1208658006243 CPxP motif; other site 1208658006244 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1208658006245 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1208658006246 RimM N-terminal domain; Region: RimM; pfam01782 1208658006247 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1208658006248 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 1208658006249 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1208658006250 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208658006251 catalytic residue [active] 1208658006252 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1208658006253 homotrimer interaction site [polypeptide binding]; other site 1208658006254 putative active site [active] 1208658006255 sensor protein QseC; Provisional; Region: PRK10337 1208658006256 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 1208658006257 dimer interface [polypeptide binding]; other site 1208658006258 phosphorylation site [posttranslational modification] 1208658006259 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 1208658006260 ATP binding site [chemical binding]; other site 1208658006261 Mg2+ binding site [ion binding]; other site 1208658006262 G-X-G motif; other site 1208658006263 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208658006264 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 1208658006265 active site 1208658006266 phosphorylation site [posttranslational modification] 1208658006267 intermolecular recognition site; other site 1208658006268 dimerization interface [polypeptide binding]; other site 1208658006269 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 1208658006270 DNA binding site [nucleotide binding] 1208658006271 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1208658006272 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1208658006273 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1208658006274 active site 1208658006275 HIGH motif; other site 1208658006276 nucleotide binding site [chemical binding]; other site 1208658006277 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1208658006278 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1208658006279 active site 1208658006280 KMSKS motif; other site 1208658006281 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1208658006282 tRNA binding surface [nucleotide binding]; other site 1208658006283 anticodon binding site; other site 1208658006284 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1208658006285 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 1208658006286 active site 1208658006287 multimer interface [polypeptide binding]; other site 1208658006288 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1208658006289 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 1208658006290 non-specific DNA binding site [nucleotide binding]; other site 1208658006291 salt bridge; other site 1208658006292 sequence-specific DNA binding site [nucleotide binding]; other site 1208658006293 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1208658006294 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1208658006295 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1208658006296 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1208658006297 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 1208658006298 dimer interface [polypeptide binding]; other site 1208658006299 motif 1; other site 1208658006300 active site 1208658006301 motif 2; other site 1208658006302 motif 3; other site 1208658006303 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 1208658006304 anticodon binding site; other site 1208658006305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1208658006306 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1208658006307 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1208658006308 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1208658006309 Trp docking motif [polypeptide binding]; other site 1208658006310 active site 1208658006311 GTP-binding protein Der; Reviewed; Region: PRK00093 1208658006312 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1208658006313 G1 box; other site 1208658006314 GTP/Mg2+ binding site [chemical binding]; other site 1208658006315 Switch I region; other site 1208658006316 G2 box; other site 1208658006317 Switch II region; other site 1208658006318 G3 box; other site 1208658006319 G4 box; other site 1208658006320 G5 box; other site 1208658006321 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1208658006322 G1 box; other site 1208658006323 GTP/Mg2+ binding site [chemical binding]; other site 1208658006324 Switch I region; other site 1208658006325 G2 box; other site 1208658006326 G3 box; other site 1208658006327 Switch II region; other site 1208658006328 G4 box; other site 1208658006329 G5 box; other site 1208658006330 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1208658006331 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 1208658006332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658006333 homodimer interface [polypeptide binding]; other site 1208658006334 catalytic residue [active] 1208658006335 bacterial Hfq-like; Region: Hfq; cd01716 1208658006336 hexamer interface [polypeptide binding]; other site 1208658006337 Sm1 motif; other site 1208658006338 RNA binding site [nucleotide binding]; other site 1208658006339 Sm2 motif; other site 1208658006340 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1208658006341 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1208658006342 HflX GTPase family; Region: HflX; cd01878 1208658006343 G1 box; other site 1208658006344 GTP/Mg2+ binding site [chemical binding]; other site 1208658006345 Switch I region; other site 1208658006346 G2 box; other site 1208658006347 G3 box; other site 1208658006348 Switch II region; other site 1208658006349 G4 box; other site 1208658006350 G5 box; other site 1208658006351 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 1208658006352 HflK protein; Region: hflK; TIGR01933 1208658006353 HflC protein; Region: hflC; TIGR01932 1208658006354 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 1208658006355 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1208658006356 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 1208658006357 dimer interface [polypeptide binding]; other site 1208658006358 motif 1; other site 1208658006359 active site 1208658006360 motif 2; other site 1208658006361 motif 3; other site 1208658006362 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1208658006363 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 1208658006364 GDP-binding site [chemical binding]; other site 1208658006365 ACT binding site; other site 1208658006366 IMP binding site; other site 1208658006367 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 1208658006368 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1208658006369 active site 1208658006370 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1208658006371 DNA primase, catalytic core; Region: dnaG; TIGR01391 1208658006372 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1208658006373 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1208658006374 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 1208658006375 interdomain interaction site; other site 1208658006376 active site 1208658006377 metal binding site [ion binding]; metal-binding site 1208658006378 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1208658006379 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 1208658006380 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1208658006381 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1208658006382 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1208658006383 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1208658006384 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208658006385 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1208658006386 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 1208658006387 DNA binding residues [nucleotide binding] 1208658006388 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 1208658006389 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1208658006390 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 1208658006391 homotrimer interaction site [polypeptide binding]; other site 1208658006392 putative active site [active] 1208658006393 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1208658006394 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208658006395 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658006396 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658006397 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658006398 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658006399 Walker A/P-loop; other site 1208658006400 ATP binding site [chemical binding]; other site 1208658006401 Q-loop/lid; other site 1208658006402 ABC transporter signature motif; other site 1208658006403 Walker B; other site 1208658006404 D-loop; other site 1208658006405 H-loop/switch region; other site 1208658006406 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658006407 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658006408 Walker A/P-loop; other site 1208658006409 ATP binding site [chemical binding]; other site 1208658006410 Q-loop/lid; other site 1208658006411 ABC transporter signature motif; other site 1208658006412 Walker B; other site 1208658006413 D-loop; other site 1208658006414 H-loop/switch region; other site 1208658006415 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658006416 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 1208658006417 TM-ABC transporter signature motif; other site 1208658006418 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658006419 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 1208658006420 TM-ABC transporter signature motif; other site 1208658006421 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208658006422 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 1208658006423 putative ligand binding site [chemical binding]; other site 1208658006424 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1208658006425 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 1208658006426 iron-sulfur cluster [ion binding]; other site 1208658006427 [2Fe-2S] cluster binding site [ion binding]; other site 1208658006428 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 1208658006429 putative alpha subunit interface [polypeptide binding]; other site 1208658006430 putative active site [active] 1208658006431 putative substrate binding site [chemical binding]; other site 1208658006432 Fe binding site [ion binding]; other site 1208658006433 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 1208658006434 inter-subunit interface; other site 1208658006435 enoyl-CoA hydratase; Provisional; Region: PRK06688 1208658006436 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 1208658006437 substrate binding site [chemical binding]; other site 1208658006438 oxyanion hole (OAH) forming residues; other site 1208658006439 trimer interface [polypeptide binding]; other site 1208658006440 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208658006441 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658006442 NAD(P) binding site [chemical binding]; other site 1208658006443 active site 1208658006444 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1208658006445 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 1208658006446 catalytic loop [active] 1208658006447 iron binding site [ion binding]; other site 1208658006448 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658006449 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658006450 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1208658006451 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1208658006452 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1208658006453 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658006454 acyl-activating enzyme (AAE) consensus motif; other site 1208658006455 AMP binding site [chemical binding]; other site 1208658006456 active site 1208658006457 CoA binding site [chemical binding]; other site 1208658006458 acetyl-CoA acetyltransferase; Validated; Region: PRK06157 1208658006459 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1208658006460 active site 1208658006461 hypothetical protein; Provisional; Region: PRK04262 1208658006462 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 1208658006463 dimer interface [polypeptide binding]; other site 1208658006464 active site 1208658006465 DUF35 OB-fold domain; Region: DUF35; pfam01796 1208658006466 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 1208658006467 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658006468 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658006469 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1208658006470 putative dimerization interface [polypeptide binding]; other site 1208658006471 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658006472 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658006473 hypothetical protein; Provisional; Region: PRK07064 1208658006474 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208658006475 PYR/PP interface [polypeptide binding]; other site 1208658006476 dimer interface [polypeptide binding]; other site 1208658006477 TPP binding site [chemical binding]; other site 1208658006478 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208658006479 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 1208658006480 TPP-binding site [chemical binding]; other site 1208658006481 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1208658006482 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208658006483 NAD(P) binding site [chemical binding]; other site 1208658006484 catalytic residues [active] 1208658006485 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658006486 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658006487 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658006488 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1208658006489 active site 1208658006490 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1208658006491 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 1208658006492 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208658006493 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208658006494 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658006495 inner membrane protein; Provisional; Region: PRK10995 1208658006496 Propionate catabolism activator; Region: PrpR_N; pfam06506 1208658006497 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1208658006498 PAS domain; Region: PAS; smart00091 1208658006499 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 1208658006500 Walker A motif; other site 1208658006501 ATP binding site [chemical binding]; other site 1208658006502 Walker B motif; other site 1208658006503 arginine finger; other site 1208658006504 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1208658006505 DNA-binding interface [nucleotide binding]; DNA binding site 1208658006506 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658006507 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658006508 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1208658006509 active site 1208658006510 catalytic residues [active] 1208658006511 metal binding site [ion binding]; metal-binding site 1208658006512 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658006513 META domain; Region: META; pfam03724 1208658006514 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 1208658006515 lysine transporter; Provisional; Region: PRK10836 1208658006516 DoxX; Region: DoxX; pfam07681 1208658006517 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 1208658006518 dimer interface [polypeptide binding]; other site 1208658006519 putative tRNA-binding site [nucleotide binding]; other site 1208658006520 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1208658006521 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1208658006522 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 1208658006523 PAS domain; Region: PAS_9; pfam13426 1208658006524 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 1208658006525 putative active site [active] 1208658006526 heme pocket [chemical binding]; other site 1208658006527 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1208658006528 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1208658006529 dimer interface [polypeptide binding]; other site 1208658006530 putative CheW interface [polypeptide binding]; other site 1208658006531 PAS domain S-box; Region: sensory_box; TIGR00229 1208658006532 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208658006533 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208658006534 metal binding site [ion binding]; metal-binding site 1208658006535 active site 1208658006536 I-site; other site 1208658006537 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1208658006538 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208658006539 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658006540 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208658006541 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658006542 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 1208658006543 dimerization interface [polypeptide binding]; other site 1208658006544 putative active cleft [active] 1208658006545 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 1208658006546 iron-sulfur cluster [ion binding]; other site 1208658006547 [2Fe-2S] cluster binding site [ion binding]; other site 1208658006548 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1208658006549 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1208658006550 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 1208658006551 Walker A/P-loop; other site 1208658006552 ATP binding site [chemical binding]; other site 1208658006553 Q-loop/lid; other site 1208658006554 ABC transporter signature motif; other site 1208658006555 Walker B; other site 1208658006556 D-loop; other site 1208658006557 H-loop/switch region; other site 1208658006558 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 1208658006559 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1208658006560 active site 1208658006561 catalytic tetrad [active] 1208658006562 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 1208658006563 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1208658006564 active site 1208658006565 catalytic tetrad [active] 1208658006566 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1208658006567 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1208658006568 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1208658006569 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1208658006570 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 1208658006571 active site 1208658006572 metal binding site [ion binding]; metal-binding site 1208658006573 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1208658006574 Transglycosylase; Region: Transgly; pfam00912 1208658006575 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1208658006576 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1208658006577 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1208658006578 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 1208658006579 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1208658006580 CoenzymeA binding site [chemical binding]; other site 1208658006581 subunit interaction site [polypeptide binding]; other site 1208658006582 PHB binding site; other site 1208658006583 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1208658006584 active site 1208658006585 DNA polymerase IV; Validated; Region: PRK02406 1208658006586 DNA binding site [nucleotide binding] 1208658006587 Yqey-like protein; Region: YqeY; pfam09424 1208658006588 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1208658006589 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 1208658006590 heme-binding site [chemical binding]; other site 1208658006591 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 1208658006592 FAD binding pocket [chemical binding]; other site 1208658006593 FAD binding motif [chemical binding]; other site 1208658006594 phosphate binding motif [ion binding]; other site 1208658006595 beta-alpha-beta structure motif; other site 1208658006596 NAD binding pocket [chemical binding]; other site 1208658006597 Heme binding pocket [chemical binding]; other site 1208658006598 Predicted transcriptional regulator [Transcription]; Region: COG1959 1208658006599 Transcriptional regulator; Region: Rrf2; cl17282 1208658006600 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1208658006601 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1208658006602 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1208658006603 putative active site [active] 1208658006604 putative PHP Thumb interface [polypeptide binding]; other site 1208658006605 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 1208658006606 generic binding surface II; other site 1208658006607 generic binding surface I; other site 1208658006608 DNA Polymerase Y-family; Region: PolY_like; cd03468 1208658006609 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1208658006610 active site 1208658006611 DNA binding site [nucleotide binding] 1208658006612 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1208658006613 Predicted esterase [General function prediction only]; Region: COG0400 1208658006614 putative hydrolase; Provisional; Region: PRK11460 1208658006615 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1208658006616 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1208658006617 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1208658006618 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208658006619 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1208658006620 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1208658006621 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1208658006622 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1208658006623 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1208658006624 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 1208658006625 non-specific DNA binding site [nucleotide binding]; other site 1208658006626 salt bridge; other site 1208658006627 sequence-specific DNA binding site [nucleotide binding]; other site 1208658006628 Cupin domain; Region: Cupin_2; pfam07883 1208658006629 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 1208658006630 intersubunit interface [polypeptide binding]; other site 1208658006631 active site 1208658006632 Zn2+ binding site [ion binding]; other site 1208658006633 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208658006634 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658006635 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1208658006636 active site 1208658006637 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1208658006638 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 1208658006639 hypothetical protein; Provisional; Region: PRK09256 1208658006640 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 1208658006641 MAPEG family; Region: MAPEG; cl09190 1208658006642 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658006643 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208658006644 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658006645 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1208658006646 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1208658006647 inhibitor site; inhibition site 1208658006648 active site 1208658006649 dimer interface [polypeptide binding]; other site 1208658006650 catalytic residue [active] 1208658006651 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658006652 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1208658006653 NRDE protein; Region: NRDE; cl01315 1208658006654 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1208658006655 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1208658006656 potential catalytic triad [active] 1208658006657 conserved cys residue [active] 1208658006658 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1208658006659 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1208658006660 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1208658006661 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1208658006662 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1208658006663 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1208658006664 Walker A/P-loop; other site 1208658006665 ATP binding site [chemical binding]; other site 1208658006666 Q-loop/lid; other site 1208658006667 ABC transporter signature motif; other site 1208658006668 Walker B; other site 1208658006669 D-loop; other site 1208658006670 H-loop/switch region; other site 1208658006671 TOBE domain; Region: TOBE_2; pfam08402 1208658006672 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1208658006673 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1208658006674 Walker A/P-loop; other site 1208658006675 ATP binding site [chemical binding]; other site 1208658006676 Q-loop/lid; other site 1208658006677 ABC transporter signature motif; other site 1208658006678 Walker B; other site 1208658006679 D-loop; other site 1208658006680 H-loop/switch region; other site 1208658006681 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1208658006682 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658006683 putative PBP binding loops; other site 1208658006684 dimer interface [polypeptide binding]; other site 1208658006685 ABC-ATPase subunit interface; other site 1208658006686 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1208658006687 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658006688 dimer interface [polypeptide binding]; other site 1208658006689 conserved gate region; other site 1208658006690 putative PBP binding loops; other site 1208658006691 ABC-ATPase subunit interface; other site 1208658006692 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 1208658006693 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1208658006694 transglutaminase; Provisional; Region: tgl; PRK03187 1208658006695 Protein of unknown function (DUF502); Region: DUF502; pfam04367 1208658006696 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1208658006697 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 1208658006698 putative DNA binding site [nucleotide binding]; other site 1208658006699 putative Zn2+ binding site [ion binding]; other site 1208658006700 AsnC family; Region: AsnC_trans_reg; pfam01037 1208658006701 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1208658006702 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208658006703 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1208658006704 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1208658006705 active site 1208658006706 metal binding site [ion binding]; metal-binding site 1208658006707 DNA binding site [nucleotide binding] 1208658006708 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1208658006709 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658006710 AAA domain; Region: AAA_23; pfam13476 1208658006711 Walker A/P-loop; other site 1208658006712 ATP binding site [chemical binding]; other site 1208658006713 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658006714 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1208658006715 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1208658006716 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1208658006717 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1208658006718 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1208658006719 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1208658006720 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1208658006721 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1208658006722 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1208658006723 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 1208658006724 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1208658006725 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 1208658006726 nucleoside/Zn binding site; other site 1208658006727 dimer interface [polypeptide binding]; other site 1208658006728 catalytic motif [active] 1208658006729 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1208658006730 dimer interface [polypeptide binding]; other site 1208658006731 catalytic triad [active] 1208658006732 enoyl-CoA hydratase; Provisional; Region: PRK05995 1208658006733 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 1208658006734 substrate binding site [chemical binding]; other site 1208658006735 oxyanion hole (OAH) forming residues; other site 1208658006736 trimer interface [polypeptide binding]; other site 1208658006737 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208658006738 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208658006739 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1208658006740 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1208658006741 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658006742 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1208658006743 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208658006744 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208658006745 ABC transporter; Region: ABC_tran_2; pfam12848 1208658006746 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208658006747 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208658006748 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208658006749 Walker A/P-loop; other site 1208658006750 ATP binding site [chemical binding]; other site 1208658006751 Q-loop/lid; other site 1208658006752 ABC transporter signature motif; other site 1208658006753 Walker B; other site 1208658006754 D-loop; other site 1208658006755 H-loop/switch region; other site 1208658006756 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1208658006757 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 1208658006758 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208658006759 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658006760 dimer interface [polypeptide binding]; other site 1208658006761 conserved gate region; other site 1208658006762 putative PBP binding loops; other site 1208658006763 ABC-ATPase subunit interface; other site 1208658006764 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1208658006765 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1208658006766 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1208658006767 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1208658006768 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 1208658006769 catalytic residues [active] 1208658006770 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1208658006771 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1208658006772 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1208658006773 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1208658006774 UGMP family protein; Validated; Region: PRK09604 1208658006775 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1208658006776 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1208658006777 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1208658006778 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 1208658006779 S-adenosylmethionine binding site [chemical binding]; other site 1208658006780 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1208658006781 Peptidase family M23; Region: Peptidase_M23; pfam01551 1208658006782 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 1208658006783 active site 1208658006784 catalytic site [active] 1208658006785 substrate binding site [chemical binding]; other site 1208658006786 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 1208658006787 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 1208658006788 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1208658006789 TRAM domain; Region: TRAM; cl01282 1208658006790 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 1208658006791 S-adenosylmethionine binding site [chemical binding]; other site 1208658006792 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1208658006793 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1208658006794 DNA binding residues [nucleotide binding] 1208658006795 dimer interface [polypeptide binding]; other site 1208658006796 copper binding site [ion binding]; other site 1208658006797 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 1208658006798 metal-binding site [ion binding] 1208658006799 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 1208658006800 catalytic triad [active] 1208658006801 dimer interface [polypeptide binding]; other site 1208658006802 Glutaredoxin-family domain; Region: GlrX-dom; TIGR02190 1208658006803 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 1208658006804 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1208658006805 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208658006806 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1208658006807 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1208658006808 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 1208658006809 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 1208658006810 putative active site [active] 1208658006811 catalytic site [active] 1208658006812 putative metal binding site [ion binding]; other site 1208658006813 SurA N-terminal domain; Region: SurA_N_3; cl07813 1208658006814 periplasmic folding chaperone; Provisional; Region: PRK10788 1208658006815 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1208658006816 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 1208658006817 active site 1208658006818 catalytic triad [active] 1208658006819 oxyanion hole [active] 1208658006820 switch loop; other site 1208658006821 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1208658006822 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1208658006823 Walker A/P-loop; other site 1208658006824 ATP binding site [chemical binding]; other site 1208658006825 Q-loop/lid; other site 1208658006826 ABC transporter signature motif; other site 1208658006827 Walker B; other site 1208658006828 D-loop; other site 1208658006829 H-loop/switch region; other site 1208658006830 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208658006831 EamA-like transporter family; Region: EamA; pfam00892 1208658006832 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658006833 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658006834 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 1208658006835 dimerization interface [polypeptide binding]; other site 1208658006836 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658006837 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208658006838 DctM-like transporters; Region: DctM; pfam06808 1208658006839 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208658006840 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 1208658006841 amidase; Provisional; Region: PRK07056 1208658006842 Amidase; Region: Amidase; cl11426 1208658006843 hypothetical protein; Provisional; Region: PRK05463 1208658006844 EAL domain; Region: EAL; pfam00563 1208658006845 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 1208658006846 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 1208658006847 substrate binding pocket [chemical binding]; other site 1208658006848 membrane-bound complex binding site; other site 1208658006849 hinge residues; other site 1208658006850 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 1208658006851 substrate binding pocket [chemical binding]; other site 1208658006852 membrane-bound complex binding site; other site 1208658006853 hinge residues; other site 1208658006854 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 1208658006855 putative active site [active] 1208658006856 heme pocket [chemical binding]; other site 1208658006857 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 1208658006858 dimer interface [polypeptide binding]; other site 1208658006859 phosphorylation site [posttranslational modification] 1208658006860 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 1208658006861 ATP binding site [chemical binding]; other site 1208658006862 Mg2+ binding site [ion binding]; other site 1208658006863 G-X-G motif; other site 1208658006864 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 1208658006865 active site 1208658006866 phosphorylation site [posttranslational modification] 1208658006867 intermolecular recognition site; other site 1208658006868 dimerization interface [polypeptide binding]; other site 1208658006869 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 1208658006870 putative binding surface; other site 1208658006871 active site 1208658006872 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1208658006873 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 1208658006874 active site 1208658006875 phosphorylation site [posttranslational modification] 1208658006876 intermolecular recognition site; other site 1208658006877 dimerization interface [polypeptide binding]; other site 1208658006878 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 1208658006879 DNA binding residues [nucleotide binding] 1208658006880 dimerization interface [polypeptide binding]; other site 1208658006881 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1208658006882 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1208658006883 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1208658006884 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1208658006885 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1208658006886 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1208658006887 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1208658006888 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1208658006889 PapC N-terminal domain; Region: PapC_N; pfam13954 1208658006890 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1208658006891 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1208658006892 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1208658006893 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1208658006894 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1208658006895 DctM-like transporters; Region: DctM; pfam06808 1208658006896 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 1208658006897 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208658006898 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208658006899 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658006900 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208658006901 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208658006902 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658006903 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658006904 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658006905 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 1208658006906 dimerization interface [polypeptide binding]; other site 1208658006907 MarR family; Region: MarR_2; cl17246 1208658006908 5-oxoprolinase; Region: PLN02666 1208658006909 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1208658006910 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1208658006911 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1208658006912 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 1208658006913 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 1208658006914 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 1208658006915 substrate binding pocket [chemical binding]; other site 1208658006916 membrane-bound complex binding site; other site 1208658006917 hinge residues; other site 1208658006918 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1208658006919 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658006920 dimer interface [polypeptide binding]; other site 1208658006921 conserved gate region; other site 1208658006922 putative PBP binding loops; other site 1208658006923 ABC-ATPase subunit interface; other site 1208658006924 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 1208658006925 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208658006926 Walker A/P-loop; other site 1208658006927 ATP binding site [chemical binding]; other site 1208658006928 Q-loop/lid; other site 1208658006929 ABC transporter signature motif; other site 1208658006930 Walker B; other site 1208658006931 D-loop; other site 1208658006932 H-loop/switch region; other site 1208658006933 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1208658006934 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1208658006935 Zn2+ binding site [ion binding]; other site 1208658006936 Mg2+ binding site [ion binding]; other site 1208658006937 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1208658006938 synthetase active site [active] 1208658006939 NTP binding site [chemical binding]; other site 1208658006940 metal binding site [ion binding]; metal-binding site 1208658006941 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 1208658006942 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1208658006943 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1208658006944 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1208658006945 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 1208658006946 catalytic site [active] 1208658006947 G-X2-G-X-G-K; other site 1208658006948 Cytochrome c [Energy production and conversion]; Region: COG3258 1208658006949 Cytochrome c; Region: Cytochrom_C; pfam00034 1208658006950 Cytochrome c; Region: Cytochrom_C; cl11414 1208658006951 Cytochrome c; Region: Cytochrom_C; cl11414 1208658006952 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1208658006953 classical (c) SDRs; Region: SDR_c; cd05233 1208658006954 NAD(P) binding site [chemical binding]; other site 1208658006955 active site 1208658006956 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1208658006957 NlpC/P60 family; Region: NLPC_P60; pfam00877 1208658006958 AMP nucleosidase; Provisional; Region: PRK08292 1208658006959 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1208658006960 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1208658006961 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 1208658006962 non-specific DNA binding site [nucleotide binding]; other site 1208658006963 salt bridge; other site 1208658006964 sequence-specific DNA binding site [nucleotide binding]; other site 1208658006966 hypothetical protein; Provisional; Region: PRK11820 1208658006967 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1208658006968 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1208658006969 ribonuclease PH; Reviewed; Region: rph; PRK00173 1208658006970 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1208658006971 hexamer interface [polypeptide binding]; other site 1208658006972 active site 1208658006973 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1208658006974 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658006975 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658006976 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 1208658006977 putative dimerization interface [polypeptide binding]; other site 1208658006978 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 1208658006979 dimerization interface [polypeptide binding]; other site 1208658006980 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1208658006981 dimer interface [polypeptide binding]; other site 1208658006982 putative CheW interface [polypeptide binding]; other site 1208658006983 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 1208658006984 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 1208658006985 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208658006986 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208658006987 metal binding site [ion binding]; metal-binding site 1208658006988 active site 1208658006989 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 1208658006990 active site 1208658006991 dimerization interface [polypeptide binding]; other site 1208658006992 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 1208658006993 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 1208658006994 FeS/SAM binding site; other site 1208658006995 HemN C-terminal domain; Region: HemN_C; pfam06969 1208658006996 glutamine synthetase; Provisional; Region: glnA; PRK09469 1208658006997 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1208658006998 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1208658006999 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1208658007000 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 1208658007001 putative active site [active] 1208658007002 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 1208658007003 dimer interface [polypeptide binding]; other site 1208658007004 phosphorylation site [posttranslational modification] 1208658007005 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 1208658007006 ATP binding site [chemical binding]; other site 1208658007007 Mg2+ binding site [ion binding]; other site 1208658007008 G-X-G motif; other site 1208658007009 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1208658007010 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 1208658007011 active site 1208658007012 phosphorylation site [posttranslational modification] 1208658007013 intermolecular recognition site; other site 1208658007014 dimerization interface [polypeptide binding]; other site 1208658007015 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 1208658007016 Walker A motif; other site 1208658007017 ATP binding site [chemical binding]; other site 1208658007018 Walker B motif; other site 1208658007019 arginine finger; other site 1208658007020 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1208658007021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658007022 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1208658007023 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 1208658007024 dimerization interface [polypeptide binding]; other site 1208658007025 Pirin-related protein [General function prediction only]; Region: COG1741 1208658007026 Pirin; Region: Pirin; pfam02678 1208658007027 Pirin-related protein [General function prediction only]; Region: COG1741 1208658007028 Pirin; Region: Pirin; pfam02678 1208658007029 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1208658007030 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1208658007031 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1208658007032 Walker A/P-loop; other site 1208658007033 ATP binding site [chemical binding]; other site 1208658007034 Q-loop/lid; other site 1208658007035 ABC transporter signature motif; other site 1208658007036 Walker B; other site 1208658007037 D-loop; other site 1208658007038 H-loop/switch region; other site 1208658007039 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1208658007040 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658007041 dimer interface [polypeptide binding]; other site 1208658007042 conserved gate region; other site 1208658007043 putative PBP binding loops; other site 1208658007044 ABC-ATPase subunit interface; other site 1208658007045 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1208658007046 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1208658007047 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1208658007048 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 1208658007049 FAD binding pocket [chemical binding]; other site 1208658007050 FAD binding motif [chemical binding]; other site 1208658007051 phosphate binding motif [ion binding]; other site 1208658007052 beta-alpha-beta structure motif; other site 1208658007053 NAD binding pocket [chemical binding]; other site 1208658007054 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1208658007055 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208658007056 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658007057 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 1208658007058 homotrimer interaction site [polypeptide binding]; other site 1208658007059 putative active site [active] 1208658007060 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1208658007061 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 1208658007062 generic binding surface II; other site 1208658007063 ssDNA binding site; other site 1208658007064 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 1208658007065 ATP binding site [chemical binding]; other site 1208658007066 putative Mg++ binding site [ion binding]; other site 1208658007067 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 1208658007068 nucleotide binding region [chemical binding]; other site 1208658007069 ATP-binding site [chemical binding]; other site 1208658007070 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1208658007071 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658007072 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 1208658007073 dimerization interface [polypeptide binding]; other site 1208658007074 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658007075 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658007076 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 1208658007077 putative effector binding pocket; other site 1208658007078 dimerization interface [polypeptide binding]; other site 1208658007079 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1208658007080 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1208658007081 tetrameric interface [polypeptide binding]; other site 1208658007082 NAD binding site [chemical binding]; other site 1208658007083 catalytic residues [active] 1208658007084 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1208658007085 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1208658007086 dimerization interface [polypeptide binding]; other site 1208658007087 DPS ferroxidase diiron center [ion binding]; other site 1208658007088 ion pore; other site 1208658007089 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 1208658007090 TPR motif; other site 1208658007091 binding surface 1208658007092 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1208658007093 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 1208658007094 active site 1208658007095 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1208658007096 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1208658007097 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1208658007098 Vi polysaccharide export ATP-binding protein VexC; Provisional; Region: PRK15177 1208658007099 Walker A/P-loop; other site 1208658007100 ATP binding site [chemical binding]; other site 1208658007101 Q-loop/lid; other site 1208658007102 ABC transporter signature motif; other site 1208658007103 Walker B; other site 1208658007104 D-loop; other site 1208658007105 H-loop/switch region; other site 1208658007106 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 1208658007107 Vi polysaccharide biosynthesis protein TviE; Provisional; Region: PRK15179 1208658007108 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 1208658007109 Vi polysaccharide biosynthesis protein TviD; Provisional; Region: PRK15180 1208658007110 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1208658007111 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1208658007112 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 1208658007113 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1208658007114 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1208658007115 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 1208658007116 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 1208658007117 NAD binding site [chemical binding]; other site 1208658007118 substrate binding site [chemical binding]; other site 1208658007119 homodimer interface [polypeptide binding]; other site 1208658007120 active site 1208658007121 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1208658007122 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1208658007123 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1208658007124 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1208658007125 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1208658007126 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658007127 NAD(P) binding site [chemical binding]; other site 1208658007128 active site 1208658007129 Sulfatase; Region: Sulfatase; cl17466 1208658007130 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1208658007131 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 1208658007132 substrate-cofactor binding pocket; other site 1208658007133 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658007134 catalytic residue [active] 1208658007135 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1208658007136 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 1208658007137 active site 1208658007138 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1208658007139 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1208658007140 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1208658007141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658007142 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 1208658007143 Enoylreductase; Region: PKS_ER; smart00829 1208658007144 NAD(P) binding site [chemical binding]; other site 1208658007145 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 1208658007146 KR domain; Region: KR; pfam08659 1208658007147 putative NADP binding site [chemical binding]; other site 1208658007148 active site 1208658007149 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1208658007150 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1208658007151 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208658007152 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208658007153 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 1208658007154 dimerization interface [polypeptide binding]; other site 1208658007155 ligand binding site [chemical binding]; other site 1208658007156 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1208658007157 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1208658007158 Walker A/P-loop; other site 1208658007159 ATP binding site [chemical binding]; other site 1208658007160 Q-loop/lid; other site 1208658007161 ABC transporter signature motif; other site 1208658007162 Walker B; other site 1208658007163 D-loop; other site 1208658007164 H-loop/switch region; other site 1208658007165 TOBE domain; Region: TOBE_2; pfam08402 1208658007166 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1208658007167 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658007168 dimer interface [polypeptide binding]; other site 1208658007169 conserved gate region; other site 1208658007170 putative PBP binding loops; other site 1208658007171 ABC-ATPase subunit interface; other site 1208658007172 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658007173 dimer interface [polypeptide binding]; other site 1208658007174 conserved gate region; other site 1208658007175 putative PBP binding loops; other site 1208658007176 ABC-ATPase subunit interface; other site 1208658007177 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1208658007178 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1208658007179 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1208658007180 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1208658007181 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 1208658007182 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208658007183 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 1208658007184 dimerization interface [polypeptide binding]; other site 1208658007185 ligand binding site [chemical binding]; other site 1208658007186 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658007187 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 1208658007188 TM-ABC transporter signature motif; other site 1208658007189 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1208658007190 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 1208658007191 TM-ABC transporter signature motif; other site 1208658007192 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1208658007193 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658007194 Walker A/P-loop; other site 1208658007195 ATP binding site [chemical binding]; other site 1208658007196 Q-loop/lid; other site 1208658007197 ABC transporter signature motif; other site 1208658007198 Walker B; other site 1208658007199 D-loop; other site 1208658007200 H-loop/switch region; other site 1208658007201 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658007202 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658007203 Walker A/P-loop; other site 1208658007204 ATP binding site [chemical binding]; other site 1208658007205 Q-loop/lid; other site 1208658007206 ABC transporter signature motif; other site 1208658007207 Walker B; other site 1208658007208 D-loop; other site 1208658007209 H-loop/switch region; other site 1208658007210 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1208658007211 glutathionine S-transferase; Provisional; Region: PRK10542 1208658007212 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 1208658007213 C-terminal domain interface [polypeptide binding]; other site 1208658007214 GSH binding site (G-site) [chemical binding]; other site 1208658007215 dimer interface [polypeptide binding]; other site 1208658007216 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1208658007217 dimer interface [polypeptide binding]; other site 1208658007218 N-terminal domain interface [polypeptide binding]; other site 1208658007219 substrate binding pocket (H-site) [chemical binding]; other site 1208658007220 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1208658007221 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1208658007222 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 1208658007223 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1208658007224 C-terminal domain interface [polypeptide binding]; other site 1208658007225 GSH binding site (G-site) [chemical binding]; other site 1208658007226 dimer interface [polypeptide binding]; other site 1208658007227 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1208658007228 dimer interface [polypeptide binding]; other site 1208658007229 N-terminal domain interface [polypeptide binding]; other site 1208658007230 substrate binding pocket (H-site) [chemical binding]; other site 1208658007231 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208658007232 EamA-like transporter family; Region: EamA; pfam00892 1208658007233 Protein of unknown function (DUF423); Region: DUF423; pfam04241 1208658007234 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 1208658007235 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 1208658007236 RES domain; Region: RES; pfam08808 1208658007237 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1208658007238 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1208658007239 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 1208658007240 phosphate binding site [ion binding]; other site 1208658007241 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1208658007242 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1208658007243 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1208658007244 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1208658007245 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208658007246 Coenzyme A binding pocket [chemical binding]; other site 1208658007247 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1208658007248 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 1208658007249 C-terminal domain interface [polypeptide binding]; other site 1208658007250 GSH binding site (G-site) [chemical binding]; other site 1208658007251 dimer interface [polypeptide binding]; other site 1208658007252 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1208658007253 N-terminal domain interface [polypeptide binding]; other site 1208658007254 putative dimer interface [polypeptide binding]; other site 1208658007255 active site 1208658007256 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 1208658007257 catalytic residues [active] 1208658007258 dimer interface [polypeptide binding]; other site 1208658007259 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 1208658007260 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 1208658007261 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 1208658007262 TPR repeat; Region: TPR_11; pfam13414 1208658007263 binding surface 1208658007264 TPR motif; other site 1208658007265 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658007266 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658007267 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 1208658007268 ArsC family; Region: ArsC; pfam03960 1208658007269 catalytic residues [active] 1208658007270 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1208658007271 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 1208658007272 N-terminal plug; other site 1208658007273 ligand-binding site [chemical binding]; other site 1208658007274 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1208658007275 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 1208658007276 catalytic triad [active] 1208658007277 DoxX; Region: DoxX; pfam07681 1208658007278 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 1208658007279 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 1208658007280 active site 1208658007281 Zn binding site [ion binding]; other site 1208658007282 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 1208658007283 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1208658007284 active site 1208658007285 catalytic tetrad [active] 1208658007286 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 1208658007287 Ligand Binding Site [chemical binding]; other site 1208658007288 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 1208658007289 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658007290 DNA-binding site [nucleotide binding]; DNA binding site 1208658007291 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 1208658007292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658007293 homodimer interface [polypeptide binding]; other site 1208658007294 catalytic residue [active] 1208658007295 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1208658007296 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1208658007297 catalytic residue [active] 1208658007298 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 1208658007299 dimer interface [polypeptide binding]; other site 1208658007300 pyridoxamine kinase; Validated; Region: PRK05756 1208658007301 pyridoxal binding site [chemical binding]; other site 1208658007302 ATP binding site [chemical binding]; other site 1208658007303 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1208658007304 GAF domain; Region: GAF; pfam01590 1208658007305 GAF domain; Region: GAF_3; pfam13492 1208658007306 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1208658007307 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 1208658007308 putative active site [active] 1208658007309 heme pocket [chemical binding]; other site 1208658007310 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 1208658007311 dimer interface [polypeptide binding]; other site 1208658007312 phosphorylation site [posttranslational modification] 1208658007313 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 1208658007314 ATP binding site [chemical binding]; other site 1208658007315 Mg2+ binding site [ion binding]; other site 1208658007316 G-X-G motif; other site 1208658007317 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 1208658007318 Response regulator receiver domain; Region: Response_reg; pfam00072 1208658007319 active site 1208658007320 phosphorylation site [posttranslational modification] 1208658007321 intermolecular recognition site; other site 1208658007322 dimerization interface [polypeptide binding]; other site 1208658007323 malto-oligosyltrehalose synthase; Region: trehalose_TreY; TIGR02401 1208658007324 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1208658007325 active site 1208658007326 catalytic site [active] 1208658007327 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1208658007328 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 1208658007329 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1208658007330 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1208658007331 catalytic site [active] 1208658007332 active site 1208658007333 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1208658007334 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1208658007335 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1208658007336 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1208658007337 active site 1208658007338 catalytic site [active] 1208658007339 glycogen branching enzyme; Provisional; Region: PRK05402 1208658007340 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1208658007341 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1208658007342 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1208658007343 active site 1208658007344 catalytic site [active] 1208658007345 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1208658007346 trehalose synthase; Region: treS_nterm; TIGR02456 1208658007347 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1208658007348 active site 1208658007349 catalytic site [active] 1208658007350 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 1208658007351 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1208658007352 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1208658007353 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 1208658007354 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1208658007355 active site 1208658007356 homodimer interface [polypeptide binding]; other site 1208658007357 catalytic site [active] 1208658007358 acceptor binding site [chemical binding]; other site 1208658007359 glycogen synthase; Provisional; Region: glgA; PRK00654 1208658007360 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1208658007361 ADP-binding pocket [chemical binding]; other site 1208658007362 homodimer interface [polypeptide binding]; other site 1208658007363 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1208658007364 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1208658007365 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1208658007366 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1208658007367 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1208658007368 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 1208658007369 Walker A motif; other site 1208658007370 ATP binding site [chemical binding]; other site 1208658007371 Walker B motif; other site 1208658007372 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1208658007373 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 1208658007374 active site 1208658007375 phosphorylation site [posttranslational modification] 1208658007376 intermolecular recognition site; other site 1208658007377 dimerization interface [polypeptide binding]; other site 1208658007378 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 1208658007379 Walker A motif; other site 1208658007380 ATP binding site [chemical binding]; other site 1208658007381 Walker B motif; other site 1208658007382 arginine finger; other site 1208658007383 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1208658007384 thiamine pyrophosphate protein; Provisional; Region: PRK08273 1208658007385 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1208658007386 PYR/PP interface [polypeptide binding]; other site 1208658007387 dimer interface [polypeptide binding]; other site 1208658007388 tetramer interface [polypeptide binding]; other site 1208658007389 TPP binding site [chemical binding]; other site 1208658007390 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208658007391 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 1208658007392 TPP-binding site [chemical binding]; other site 1208658007393 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1208658007394 BON domain; Region: BON; pfam04972 1208658007395 PRC-barrel domain; Region: PRC; pfam05239 1208658007396 Predicted membrane protein [Function unknown]; Region: COG2323 1208658007398 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1208658007399 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1208658007400 short chain dehydrogenase; Provisional; Region: PRK06701 1208658007401 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1208658007402 NAD binding site [chemical binding]; other site 1208658007403 metal binding site [ion binding]; metal-binding site 1208658007404 active site 1208658007405 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1208658007406 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 1208658007407 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1208658007408 active site 1208658007409 DNA binding site [nucleotide binding] 1208658007410 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1208658007411 DNA binding site [nucleotide binding] 1208658007412 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1208658007413 nucleotide binding site [chemical binding]; other site 1208658007414 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1208658007415 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1208658007416 putative DNA binding site [nucleotide binding]; other site 1208658007417 putative homodimer interface [polypeptide binding]; other site 1208658007418 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1208658007419 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 1208658007420 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1208658007421 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1208658007422 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 1208658007423 Predicted integral membrane protein [Function unknown]; Region: COG0392 1208658007424 cardiolipin synthase 2; Provisional; Region: PRK11263 1208658007425 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1208658007426 putative active site [active] 1208658007427 catalytic site [active] 1208658007428 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1208658007429 putative active site [active] 1208658007430 catalytic site [active] 1208658007431 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1208658007432 putative catalytic site [active] 1208658007433 putative metal binding site [ion binding]; other site 1208658007434 putative phosphate binding site [ion binding]; other site 1208658007435 Predicted transcriptional regulators [Transcription]; Region: COG1695 1208658007436 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1208658007437 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1208658007438 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 1208658007439 FAD binding pocket [chemical binding]; other site 1208658007440 FAD binding motif [chemical binding]; other site 1208658007441 phosphate binding motif [ion binding]; other site 1208658007442 NAD binding pocket [chemical binding]; other site 1208658007443 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 1208658007444 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208658007445 Autotransporter beta-domain; Region: Autotransporter; smart00869 1208658007446 RecB family nuclease, putative, TM0106 family; Region: TIGR03491 1208658007447 RNase_H superfamily; Region: RNase_H_2; pfam13482 1208658007448 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1208658007449 AAA domain; Region: AAA_12; pfam13087 1208658007450 LysR family transcriptional regulator; Provisional; Region: PRK14997 1208658007451 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658007452 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 1208658007453 putative effector binding pocket; other site 1208658007454 putative dimerization interface [polypeptide binding]; other site 1208658007455 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1208658007456 Predicted flavoprotein [General function prediction only]; Region: COG0431 1208658007457 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1208658007458 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658007459 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658007460 DNA-binding site [nucleotide binding]; DNA binding site 1208658007461 FCD domain; Region: FCD; pfam07729 1208658007462 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1208658007463 CoA binding domain; Region: CoA_binding_2; pfam13380 1208658007464 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1208658007465 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1208658007466 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658007467 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 1208658007468 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1208658007469 active site 1208658007470 citrylCoA binding site [chemical binding]; other site 1208658007471 oxalacetate binding site [chemical binding]; other site 1208658007472 coenzyme A binding site [chemical binding]; other site 1208658007473 catalytic triad [active] 1208658007474 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658007475 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658007476 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658007477 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1208658007478 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1208658007479 DNA binding site [nucleotide binding] 1208658007480 domain linker motif; other site 1208658007481 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1208658007482 dimerization interface [polypeptide binding]; other site 1208658007483 ligand binding site [chemical binding]; other site 1208658007484 3-isopropylmalate dehydratase, small subunit; Region: leuD; TIGR00171 1208658007485 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 1208658007486 substrate binding site [chemical binding]; other site 1208658007487 isopropylmalate isomerase large subunit; Provisional; Region: PRK12466 1208658007488 substrate binding site [chemical binding]; other site 1208658007489 ligand binding site [chemical binding]; other site 1208658007490 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658007491 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1208658007492 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 1208658007493 putative active site pocket [active] 1208658007494 metal binding site [ion binding]; metal-binding site 1208658007495 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1208658007496 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1208658007497 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1208658007498 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 1208658007499 homotrimer interaction site [polypeptide binding]; other site 1208658007500 putative active site [active] 1208658007501 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 1208658007502 dimer interface [polypeptide binding]; other site 1208658007503 putative inhibitory loop; other site 1208658007504 TPR motif; other site 1208658007505 Tetratricopeptide repeat; Region: TPR_8; pfam13181 1208658007506 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1208658007507 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 1208658007508 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1208658007509 catalytic residues [active] 1208658007510 central insert; other site 1208658007511 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1208658007512 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1208658007513 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1208658007514 CcmB protein; Region: CcmB; cl17444 1208658007515 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658007516 Walker A/P-loop; other site 1208658007517 ATP binding site [chemical binding]; other site 1208658007518 ABC transporter; Region: ABC_tran; pfam00005 1208658007519 Q-loop/lid; other site 1208658007520 ABC transporter signature motif; other site 1208658007521 Walker B; other site 1208658007522 D-loop; other site 1208658007523 H-loop/switch region; other site 1208658007524 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1208658007525 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 1208658007526 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 1208658007527 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1208658007528 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1208658007529 [4Fe-4S] binding site [ion binding]; other site 1208658007530 molybdopterin cofactor binding site; other site 1208658007531 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1208658007532 molybdopterin cofactor binding site; other site 1208658007533 NapD protein; Region: NapD; pfam03927 1208658007534 periplasmic nitrate reductase, NapE protein; Region: nitrate_rd_NapE; TIGR02973 1208658007535 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1208658007536 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 1208658007537 substrate binding pocket [chemical binding]; other site 1208658007538 membrane-bound complex binding site; other site 1208658007539 hinge residues; other site 1208658007540 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658007541 dimer interface [polypeptide binding]; other site 1208658007542 conserved gate region; other site 1208658007543 putative PBP binding loops; other site 1208658007544 ABC-ATPase subunit interface; other site 1208658007545 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208658007546 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208658007547 Walker A/P-loop; other site 1208658007548 ATP binding site [chemical binding]; other site 1208658007549 Q-loop/lid; other site 1208658007550 ABC transporter signature motif; other site 1208658007551 Walker B; other site 1208658007552 D-loop; other site 1208658007553 H-loop/switch region; other site 1208658007554 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 1208658007555 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1208658007556 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1208658007557 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1208658007558 dimer interface [polypeptide binding]; other site 1208658007559 active site residues [active] 1208658007560 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1208658007561 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 1208658007562 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1208658007563 active site 1208658007564 dimer interface [polypeptide binding]; other site 1208658007565 metal binding site [ion binding]; metal-binding site 1208658007566 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 1208658007567 PAS fold; Region: PAS_3; pfam08447 1208658007568 putative active site [active] 1208658007569 heme pocket [chemical binding]; other site 1208658007570 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208658007571 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208658007572 metal binding site [ion binding]; metal-binding site 1208658007573 active site 1208658007574 I-site; other site 1208658007575 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658007576 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658007577 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 1208658007578 dimerization interface [polypeptide binding]; other site 1208658007579 dihydropteridine reductase (DHPR), classical (c) SDRs; Region: DHPR_SDR_c_like; cd05334 1208658007580 NAD binding site [chemical binding]; other site 1208658007581 homodimer interface [polypeptide binding]; other site 1208658007582 active site 1208658007583 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658007584 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1208658007585 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 1208658007586 active site 1208658007587 putative substrate binding pocket [chemical binding]; other site 1208658007588 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 1208658007589 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 1208658007590 putative DNA binding site [nucleotide binding]; other site 1208658007591 putative Zn2+ binding site [ion binding]; other site 1208658007592 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1208658007593 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 1208658007594 ArsC family; Region: ArsC; pfam03960 1208658007595 catalytic residues [active] 1208658007596 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 1208658007597 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1208658007598 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658007599 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658007600 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 1208658007601 dimerization interface [polypeptide binding]; other site 1208658007602 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658007603 salicylate hydroxylase; Provisional; Region: PRK08163 1208658007604 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1208658007605 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 1208658007606 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1208658007607 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1208658007608 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 1208658007609 active site 1208658007610 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1208658007611 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 1208658007612 putative active site [active] 1208658007613 metal binding site [ion binding]; metal-binding site 1208658007614 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1208658007615 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 1208658007616 dimer interface [polypeptide binding]; other site 1208658007617 active site 1208658007618 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 1208658007619 fatty oxidation complex, alpha subunit FadJ; Region: FadJ; TIGR02440 1208658007620 substrate binding site [chemical binding]; other site 1208658007621 oxyanion hole (OAH) forming residues; other site 1208658007622 trimer interface [polypeptide binding]; other site 1208658007623 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1208658007624 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208658007625 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208658007626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208658007627 enoyl-CoA hydratase; Provisional; Region: PRK09245 1208658007628 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 1208658007629 substrate binding site [chemical binding]; other site 1208658007630 oxyanion hole (OAH) forming residues; other site 1208658007631 trimer interface [polypeptide binding]; other site 1208658007632 enoyl-CoA hydratase; Provisional; Region: PRK06494 1208658007633 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 1208658007634 substrate binding site [chemical binding]; other site 1208658007635 oxyanion hole (OAH) forming residues; other site 1208658007636 trimer interface [polypeptide binding]; other site 1208658007637 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658007638 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658007639 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658007640 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1208658007641 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658007642 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 1208658007643 putative dimerization interface [polypeptide binding]; other site 1208658007644 putative substrate binding pocket [chemical binding]; other site 1208658007646 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658007647 DUF35 OB-fold domain; Region: DUF35; pfam01796 1208658007648 lipid-transfer protein; Provisional; Region: PRK08256 1208658007649 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1208658007650 active site 1208658007651 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658007652 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658007653 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658007654 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 1208658007655 putative DNA binding site [nucleotide binding]; other site 1208658007656 putative Zn2+ binding site [ion binding]; other site 1208658007657 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658007658 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658007659 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658007660 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658007661 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658007662 Walker A/P-loop; other site 1208658007663 ATP binding site [chemical binding]; other site 1208658007664 Q-loop/lid; other site 1208658007665 ABC transporter signature motif; other site 1208658007666 Walker B; other site 1208658007667 D-loop; other site 1208658007668 H-loop/switch region; other site 1208658007669 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658007670 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658007671 Walker A/P-loop; other site 1208658007672 ATP binding site [chemical binding]; other site 1208658007673 Q-loop/lid; other site 1208658007674 ABC transporter signature motif; other site 1208658007675 Walker B; other site 1208658007676 D-loop; other site 1208658007677 H-loop/switch region; other site 1208658007678 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658007679 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 1208658007680 TM-ABC transporter signature motif; other site 1208658007681 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 1208658007682 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658007683 TM-ABC transporter signature motif; other site 1208658007684 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208658007685 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 1208658007686 putative ligand binding site [chemical binding]; other site 1208658007687 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208658007688 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_9; cd07245 1208658007689 dimer interface [polypeptide binding]; other site 1208658007690 putative metal binding site [ion binding]; other site 1208658007691 hypothetical protein; Provisional; Region: PRK07236 1208658007692 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1208658007693 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 1208658007694 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1208658007695 Sulfatase; Region: Sulfatase; pfam00884 1208658007696 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658007697 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658007698 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658007699 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 1208658007700 dimerization interface [polypeptide binding]; other site 1208658007701 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 1208658007702 glutathionine S-transferase; Provisional; Region: PRK10542 1208658007703 C-terminal domain interface [polypeptide binding]; other site 1208658007704 GSH binding site (G-site) [chemical binding]; other site 1208658007705 dimer interface [polypeptide binding]; other site 1208658007706 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1208658007707 dimer interface [polypeptide binding]; other site 1208658007708 N-terminal domain interface [polypeptide binding]; other site 1208658007709 substrate binding pocket (H-site) [chemical binding]; other site 1208658007710 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208658007711 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658007712 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1208658007713 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 1208658007714 active site 1208658007715 phosphorylation site [posttranslational modification] 1208658007716 intermolecular recognition site; other site 1208658007717 dimerization interface [polypeptide binding]; other site 1208658007718 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 1208658007719 DNA binding residues [nucleotide binding] 1208658007720 dimerization interface [polypeptide binding]; other site 1208658007721 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1208658007722 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1208658007723 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 1208658007724 ATP binding site [chemical binding]; other site 1208658007725 Mg2+ binding site [ion binding]; other site 1208658007726 G-X-G motif; other site 1208658007727 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658007728 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208658007729 classical (c) SDRs; Region: SDR_c; cd05233 1208658007730 NAD(P) binding site [chemical binding]; other site 1208658007731 active site 1208658007732 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1208658007733 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 1208658007734 CoenzymeA binding site [chemical binding]; other site 1208658007735 subunit interaction site [polypeptide binding]; other site 1208658007736 PHB binding site; other site 1208658007737 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1208658007738 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 1208658007739 non-specific DNA binding site [nucleotide binding]; other site 1208658007740 salt bridge; other site 1208658007741 sequence-specific DNA binding site [nucleotide binding]; other site 1208658007742 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658007743 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658007744 DNA-binding site [nucleotide binding]; DNA binding site 1208658007745 FCD domain; Region: FCD; pfam07729 1208658007746 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1208658007747 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208658007748 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1208658007749 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 1208658007750 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 1208658007751 active site 1208658007752 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 1208658007753 homotrimer interaction site [polypeptide binding]; other site 1208658007754 putative active site [active] 1208658007755 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 1208658007756 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1208658007757 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1208658007758 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1208658007759 Walker A/P-loop; other site 1208658007760 ATP binding site [chemical binding]; other site 1208658007761 Q-loop/lid; other site 1208658007762 ABC transporter signature motif; other site 1208658007763 Walker B; other site 1208658007764 D-loop; other site 1208658007765 H-loop/switch region; other site 1208658007766 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1208658007767 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658007768 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1208658007769 TM-ABC transporter signature motif; other site 1208658007770 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1208658007771 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1208658007772 ligand binding site [chemical binding]; other site 1208658007773 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1208658007774 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658007775 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 1208658007776 dimerization interface [polypeptide binding]; other site 1208658007777 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658007778 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1208658007779 agmatinase; Region: agmatinase; TIGR01230 1208658007780 oligomer interface [polypeptide binding]; other site 1208658007781 putative active site [active] 1208658007782 Mn binding site [ion binding]; other site 1208658007783 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208658007784 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658007785 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208658007786 DctM-like transporters; Region: DctM; pfam06808 1208658007787 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208658007788 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208658007789 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658007790 DNA-binding site [nucleotide binding]; DNA binding site 1208658007791 UTRA domain; Region: UTRA; cl17743 1208658007792 Dienelactone hydrolase family; Region: DLH; pfam01738 1208658007793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658007794 NAD(P) binding site [chemical binding]; other site 1208658007795 active site 1208658007796 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658007797 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658007798 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658007799 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1208658007800 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658007801 Walker A/P-loop; other site 1208658007802 ATP binding site [chemical binding]; other site 1208658007803 Q-loop/lid; other site 1208658007804 ABC transporter signature motif; other site 1208658007805 Walker B; other site 1208658007806 D-loop; other site 1208658007807 H-loop/switch region; other site 1208658007808 TOBE domain; Region: TOBE_2; pfam08402 1208658007809 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1208658007810 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1208658007811 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658007812 dimer interface [polypeptide binding]; other site 1208658007813 conserved gate region; other site 1208658007814 putative PBP binding loops; other site 1208658007815 ABC-ATPase subunit interface; other site 1208658007816 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1208658007817 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658007818 ABC-ATPase subunit interface; other site 1208658007819 putative PBP binding loops; other site 1208658007820 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208658007821 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1208658007822 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1208658007823 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658007824 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 1208658007825 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1208658007826 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 1208658007827 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1208658007828 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208658007829 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1208658007830 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 1208658007831 carboxyltransferase (CT) interaction site; other site 1208658007832 biotinylation site [posttranslational modification]; other site 1208658007833 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658007834 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658007835 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1208658007836 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208658007837 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1208658007838 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 1208658007839 active site 1208658007840 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658007841 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1208658007842 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1208658007843 active site pocket [active] 1208658007844 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658007845 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658007846 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 1208658007847 putative dimerization interface [polypeptide binding]; other site 1208658007848 short chain dehydrogenase; Provisional; Region: PRK12747 1208658007849 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658007850 NAD(P) binding site [chemical binding]; other site 1208658007851 active site 1208658007852 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 1208658007853 putative substrate translocation pore; other site 1208658007854 Na(+)/urea-polyamine cotransporter DUR3, and related proteins; solute-binding domain; Region: SLC5sbd_DUR3; cd11476 1208658007855 Na binding site [ion binding]; other site 1208658007856 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1208658007857 dimer interface [polypeptide binding]; other site 1208658007858 catalytic triad [active] 1208658007859 hypothetical protein; Provisional; Region: PRK06486 1208658007860 active site 1208658007861 intersubunit interface [polypeptide binding]; other site 1208658007862 Zn2+ binding site [ion binding]; other site 1208658007863 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1208658007864 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658007865 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 1208658007866 putative dimerization interface [polypeptide binding]; other site 1208658007867 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1208658007868 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1208658007869 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658007870 Amino acid synthesis; Region: AA_synth; pfam06684 1208658007871 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1208658007872 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1208658007873 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 1208658007874 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 1208658007875 Transporter associated domain; Region: CorC_HlyC; smart01091 1208658007877 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1208658007878 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1208658007879 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily; Region: M14_ASTE_ASPA_like; cd06230 1208658007880 active site 1208658007881 Zn binding site [ion binding]; other site 1208658007882 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 1208658007883 Ligand Binding Site [chemical binding]; other site 1208658007884 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 1208658007885 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1208658007886 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 1208658007887 active site 1208658007888 phosphorylation site [posttranslational modification] 1208658007889 intermolecular recognition site; other site 1208658007890 dimerization interface [polypeptide binding]; other site 1208658007891 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 1208658007892 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1208658007893 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1208658007894 RNA polymerase sigma factor; Provisional; Region: PRK12511 1208658007895 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208658007896 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 1208658007897 DNA binding residues [nucleotide binding] 1208658007898 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208658007899 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208658007900 metal binding site [ion binding]; metal-binding site 1208658007901 active site 1208658007902 I-site; other site 1208658007903 Transmembrane secretion effector; Region: MFS_3; pfam05977 1208658007904 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 1208658007905 putative substrate translocation pore; other site 1208658007906 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 1208658007907 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 1208658007908 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208658007909 catalytic residue [active] 1208658007910 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 1208658007911 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 1208658007912 TrkA-C domain; Region: TrkA_C; pfam02080 1208658007913 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1208658007914 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1208658007915 Cytochrome c; Region: Cytochrom_C; pfam00034 1208658007916 Protein of unknown function, DUF488; Region: DUF488; cl01246 1208658007917 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1208658007918 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658007919 DNA-binding site [nucleotide binding]; DNA binding site 1208658007920 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1208658007921 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208658007922 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1208658007923 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1208658007924 DctM-like transporters; Region: DctM; pfam06808 1208658007925 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208658007926 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1208658007927 thiamine pyrophosphate protein; Validated; Region: PRK08199 1208658007928 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208658007929 PYR/PP interface [polypeptide binding]; other site 1208658007930 dimer interface [polypeptide binding]; other site 1208658007931 TPP binding site [chemical binding]; other site 1208658007932 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208658007933 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 1208658007934 TPP-binding site [chemical binding]; other site 1208658007935 allantoate amidohydrolase; Reviewed; Region: PRK12893 1208658007936 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1208658007937 active site 1208658007938 metal binding site [ion binding]; metal-binding site 1208658007939 dimer interface [polypeptide binding]; other site 1208658007940 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1208658007941 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1208658007942 NAD(P) binding site [chemical binding]; other site 1208658007943 catalytic residues [active] 1208658007944 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1208658007945 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1208658007946 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1208658007947 NAD(P) binding site [chemical binding]; other site 1208658007948 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 1208658007949 putative active site [active] 1208658007950 putative metal binding site [ion binding]; other site 1208658007951 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208658007952 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208658007953 Walker A/P-loop; other site 1208658007954 ATP binding site [chemical binding]; other site 1208658007955 Q-loop/lid; other site 1208658007956 ABC transporter signature motif; other site 1208658007957 Walker B; other site 1208658007958 D-loop; other site 1208658007959 H-loop/switch region; other site 1208658007960 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658007961 dimer interface [polypeptide binding]; other site 1208658007962 conserved gate region; other site 1208658007963 putative PBP binding loops; other site 1208658007964 ABC-ATPase subunit interface; other site 1208658007965 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 1208658007966 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1208658007967 substrate binding pocket [chemical binding]; other site 1208658007968 membrane-bound complex binding site; other site 1208658007969 hinge residues; other site 1208658007970 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658007971 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 1208658007972 putative DNA binding site [nucleotide binding]; other site 1208658007973 putative Zn2+ binding site [ion binding]; other site 1208658007974 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658007975 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1208658007976 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 1208658007977 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1208658007978 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1208658007979 active site 1208658007980 DNA polymerase III subunit delta'; Validated; Region: PRK06964 1208658007981 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1208658007982 thymidylate kinase; Validated; Region: tmk; PRK00698 1208658007983 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 1208658007984 TMP-binding site; other site 1208658007985 ATP-binding site [chemical binding]; other site 1208658007986 YceG-like family; Region: YceG; pfam02618 1208658007987 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1208658007988 dimerization interface [polypeptide binding]; other site 1208658007989 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1208658007990 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1208658007991 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1208658007992 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 1208658007993 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 1208658007994 CoenzymeA binding site [chemical binding]; other site 1208658007995 subunit interaction site [polypeptide binding]; other site 1208658007996 PHB binding site; other site 1208658007997 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1208658007998 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1208658007999 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1208658008000 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 1208658008001 substrate binding site [chemical binding]; other site 1208658008002 oxyanion hole (OAH) forming residues; other site 1208658008003 trimer interface [polypeptide binding]; other site 1208658008004 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1208658008005 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658008006 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658008007 active site 1208658008008 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 1208658008009 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1208658008010 putative coenzyme Q binding site [chemical binding]; other site 1208658008011 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 1208658008012 SmpB-tmRNA interface; other site 1208658008013 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208658008014 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208658008015 metal binding site [ion binding]; metal-binding site 1208658008016 active site 1208658008017 I-site; other site 1208658008018 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1208658008019 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 1208658008020 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1208658008021 catalytic triad [active] 1208658008022 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1208658008023 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1208658008024 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1208658008025 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1208658008026 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1208658008027 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1208658008028 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1208658008029 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1208658008030 RNA/DNA hybrid binding site [nucleotide binding]; other site 1208658008031 active site 1208658008032 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1208658008033 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1208658008034 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1208658008035 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 1208658008036 active site 1208658008037 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 1208658008038 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1208658008039 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 1208658008040 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 1208658008041 trimer interface [polypeptide binding]; other site 1208658008042 active site 1208658008043 UDP-GlcNAc binding site [chemical binding]; other site 1208658008044 lipid binding site [chemical binding]; lipid-binding site 1208658008045 periplasmic chaperone; Provisional; Region: PRK10780 1208658008046 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1208658008047 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1208658008048 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1208658008049 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1208658008050 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1208658008051 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1208658008052 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1208658008053 Surface antigen; Region: Bac_surface_Ag; pfam01103 1208658008054 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1208658008055 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 1208658008056 active site 1208658008057 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 1208658008058 putative substrate binding region [chemical binding]; other site 1208658008059 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1208658008060 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1208658008061 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1208658008062 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1208658008063 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1208658008064 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1208658008065 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14836 1208658008066 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1208658008067 catalytic residue [active] 1208658008068 putative FPP diphosphate binding site; other site 1208658008069 putative FPP binding hydrophobic cleft; other site 1208658008070 dimer interface [polypeptide binding]; other site 1208658008071 putative IPP diphosphate binding site; other site 1208658008072 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1208658008073 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 1208658008074 hinge region; other site 1208658008075 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 1208658008076 putative nucleotide binding site [chemical binding]; other site 1208658008077 uridine monophosphate binding site [chemical binding]; other site 1208658008078 homohexameric interface [polypeptide binding]; other site 1208658008079 elongation factor Ts; Provisional; Region: tsf; PRK09377 1208658008080 UBA/TS-N domain; Region: UBA; pfam00627 1208658008081 Elongation factor TS; Region: EF_TS; pfam00889 1208658008082 Elongation factor TS; Region: EF_TS; pfam00889 1208658008083 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 1208658008084 rRNA interaction site [nucleotide binding]; other site 1208658008085 S8 interaction site; other site 1208658008086 putative laminin-1 binding site; other site 1208658008087 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 1208658008088 active site 1208658008089 PII uridylyl-transferase; Provisional; Region: PRK03059 1208658008090 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1208658008091 metal binding triad; other site 1208658008092 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1208658008093 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1208658008094 Zn2+ binding site [ion binding]; other site 1208658008095 Mg2+ binding site [ion binding]; other site 1208658008096 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 1208658008097 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 1208658008098 MarC family integral membrane protein; Region: MarC; cl00919 1208658008099 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1208658008100 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1208658008101 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 1208658008102 active site 1208658008103 tetramer interface [polypeptide binding]; other site 1208658008104 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1208658008105 active site 1208658008106 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1208658008107 Colicin V production protein; Region: Colicin_V; pfam02674 1208658008108 Sporulation related domain; Region: SPOR; pfam05036 1208658008109 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1208658008110 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208658008111 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208658008112 FlaG protein; Region: FlaG; pfam03646 1208658008113 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1208658008114 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1208658008115 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1208658008116 Flagellar protein FliS; Region: FliS; cl00654 1208658008117 Flagellar protein FliT; Region: FliT; pfam05400 1208658008118 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1208658008119 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1208658008120 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 1208658008121 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1208658008122 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1208658008123 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1208658008124 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1208658008125 FliG C-terminal domain; Region: FliG_C; pfam01706 1208658008126 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1208658008127 Flagellar assembly protein FliH; Region: FliH; pfam02108 1208658008128 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 1208658008129 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 1208658008130 Walker A motif/ATP binding site; other site 1208658008131 Walker B motif; other site 1208658008132 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1208658008133 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 1208658008134 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 1208658008135 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1208658008136 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1208658008137 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1208658008138 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1208658008139 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1208658008140 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 1208658008141 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1208658008142 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 1208658008143 PAS fold; Region: PAS_3; pfam08447 1208658008144 putative active site [active] 1208658008145 heme pocket [chemical binding]; other site 1208658008146 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 1208658008147 dimerization interface [polypeptide binding]; other site 1208658008148 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1208658008149 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1208658008150 dimer interface [polypeptide binding]; other site 1208658008151 putative CheW interface [polypeptide binding]; other site 1208658008152 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 1208658008153 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 1208658008154 dimerization interface [polypeptide binding]; other site 1208658008155 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1208658008156 dimer interface [polypeptide binding]; other site 1208658008157 putative CheW interface [polypeptide binding]; other site 1208658008158 methyl-accepting protein IV; Provisional; Region: PRK09793 1208658008159 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1208658008160 dimer interface [polypeptide binding]; other site 1208658008161 ligand binding site [chemical binding]; other site 1208658008162 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 1208658008163 dimerization interface [polypeptide binding]; other site 1208658008164 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1208658008165 dimer interface [polypeptide binding]; other site 1208658008166 putative CheW interface [polypeptide binding]; other site 1208658008167 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 1208658008168 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1208658008169 dimer interface [polypeptide binding]; other site 1208658008170 ligand binding site [chemical binding]; other site 1208658008171 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 1208658008172 dimerization interface [polypeptide binding]; other site 1208658008173 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1208658008174 dimer interface [polypeptide binding]; other site 1208658008175 putative CheW interface [polypeptide binding]; other site 1208658008176 flagellar hook-associated protein FlgL; Provisional; Region: flgL; PRK12718 1208658008177 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1208658008178 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 1208658008179 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1208658008180 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12713 1208658008181 Rod binding protein; Region: Rod-binding; cl01626 1208658008182 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1208658008183 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1208658008184 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1208658008185 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12700 1208658008186 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1208658008187 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 1208658008188 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1208658008189 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1208658008190 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1208658008191 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1208658008192 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1208658008193 flagellar hook protein FlgE; Provisional; Region: flgE; PRK12637 1208658008194 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1208658008195 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1208658008196 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1208658008197 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK12633 1208658008198 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1208658008199 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1208658008200 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1208658008201 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1208658008202 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1208658008203 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1208658008204 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1208658008205 SAF-like; Region: SAF_2; pfam13144 1208658008206 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1208658008207 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1208658008208 FlgN protein; Region: FlgN; pfam05130 1208658008209 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 1208658008210 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 1208658008211 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1208658008212 FHIPEP family; Region: FHIPEP; pfam00771 1208658008213 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1208658008214 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1208658008215 chemotaxis regulator CheZ; Provisional; Region: PRK11166 1208658008216 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1208658008217 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 1208658008218 active site 1208658008219 phosphorylation site [posttranslational modification] 1208658008220 intermolecular recognition site; other site 1208658008221 dimerization interface [polypeptide binding]; other site 1208658008222 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1208658008223 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 1208658008224 active site 1208658008225 phosphorylation site [posttranslational modification] 1208658008226 intermolecular recognition site; other site 1208658008227 dimerization interface [polypeptide binding]; other site 1208658008228 CheB methylesterase; Region: CheB_methylest; pfam01339 1208658008229 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1208658008230 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1208658008231 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 1208658008232 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 1208658008233 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1208658008234 dimer interface [polypeptide binding]; other site 1208658008235 ligand binding site [chemical binding]; other site 1208658008236 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 1208658008237 dimerization interface [polypeptide binding]; other site 1208658008238 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1208658008239 dimer interface [polypeptide binding]; other site 1208658008240 putative CheW interface [polypeptide binding]; other site 1208658008241 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 1208658008242 putative CheA interaction surface; other site 1208658008243 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 1208658008244 putative binding surface; other site 1208658008245 active site 1208658008246 CheY binding; Region: CheY-binding; pfam09078 1208658008247 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1208658008248 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 1208658008249 ATP binding site [chemical binding]; other site 1208658008250 Mg2+ binding site [ion binding]; other site 1208658008251 G-X-G motif; other site 1208658008252 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 1208658008253 Response regulator receiver domain; Region: Response_reg; pfam00072 1208658008254 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 1208658008255 active site 1208658008256 phosphorylation site [posttranslational modification] 1208658008257 intermolecular recognition site; other site 1208658008258 dimerization interface [polypeptide binding]; other site 1208658008259 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1208658008260 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1208658008261 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1208658008262 ligand binding site [chemical binding]; other site 1208658008263 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1208658008264 flagellar motor protein MotA; Validated; Region: PRK09110 1208658008265 transcriptional activator FlhC; Provisional; Region: PRK12722 1208658008266 transcriptional activator FlhD; Provisional; Region: PRK02909 1208658008267 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1208658008268 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208658008269 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1208658008270 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 1208658008271 DNA binding residues [nucleotide binding] 1208658008272 flagellin; Validated; Region: PRK06819 1208658008273 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1208658008274 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1208658008275 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 1208658008276 E3 interaction surface; other site 1208658008277 lipoyl attachment site [posttranslational modification]; other site 1208658008278 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1208658008279 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1208658008280 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208658008281 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1208658008282 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1208658008283 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 1208658008284 E3 interaction surface; other site 1208658008285 lipoyl attachment site [posttranslational modification]; other site 1208658008286 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 1208658008287 E3 interaction surface; other site 1208658008288 lipoyl attachment site [posttranslational modification]; other site 1208658008289 e3 binding domain; Region: E3_binding; pfam02817 1208658008290 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1208658008291 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1208658008292 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 1208658008293 dimer interface [polypeptide binding]; other site 1208658008294 TPP-binding site [chemical binding]; other site 1208658008295 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1208658008296 PAS domain S-box; Region: sensory_box; TIGR00229 1208658008297 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 1208658008298 putative active site [active] 1208658008299 heme pocket [chemical binding]; other site 1208658008300 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1208658008301 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 1208658008302 dimer interface [polypeptide binding]; other site 1208658008303 phosphorylation site [posttranslational modification] 1208658008304 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 1208658008305 ATP binding site [chemical binding]; other site 1208658008306 Mg2+ binding site [ion binding]; other site 1208658008307 G-X-G motif; other site 1208658008308 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1208658008309 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 1208658008310 active site 1208658008311 phosphorylation site [posttranslational modification] 1208658008312 intermolecular recognition site; other site 1208658008313 dimerization interface [polypeptide binding]; other site 1208658008314 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 1208658008315 DNA binding residues [nucleotide binding] 1208658008316 dimerization interface [polypeptide binding]; other site 1208658008317 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 1208658008318 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1208658008319 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1208658008320 homodimer interface [polypeptide binding]; other site 1208658008321 NADP binding site [chemical binding]; other site 1208658008322 substrate binding site [chemical binding]; other site 1208658008323 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1208658008324 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1208658008325 active site 1208658008326 Zn binding site [ion binding]; other site 1208658008327 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1208658008328 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 1208658008329 Cu(I) binding site [ion binding]; other site 1208658008330 Predicted membrane protein [Function unknown]; Region: COG2261 1208658008331 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1208658008332 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1208658008333 Protein export membrane protein; Region: SecD_SecF; cl14618 1208658008334 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1208658008335 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1208658008336 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208658008337 transcriptional regulator; Provisional; Region: PRK10632 1208658008338 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658008339 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 1208658008340 putative effector binding pocket; other site 1208658008341 dimerization interface [polypeptide binding]; other site 1208658008342 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1208658008343 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 1208658008344 RNA binding surface [nucleotide binding]; other site 1208658008345 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1208658008346 active site 1208658008347 Chorismate lyase; Region: Chor_lyase; cl01230 1208658008348 YaeQ protein; Region: YaeQ; pfam07152 1208658008349 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1208658008350 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 1208658008351 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658008352 Walker A/P-loop; other site 1208658008353 ATP binding site [chemical binding]; other site 1208658008354 Q-loop/lid; other site 1208658008355 ABC transporter signature motif; other site 1208658008356 Walker B; other site 1208658008357 D-loop; other site 1208658008358 H-loop/switch region; other site 1208658008359 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658008360 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658008361 Walker A/P-loop; other site 1208658008362 ATP binding site [chemical binding]; other site 1208658008363 Q-loop/lid; other site 1208658008364 ABC transporter signature motif; other site 1208658008365 Walker B; other site 1208658008366 D-loop; other site 1208658008367 H-loop/switch region; other site 1208658008368 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658008369 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1208658008370 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658008371 dimer interface [polypeptide binding]; other site 1208658008372 conserved gate region; other site 1208658008373 putative PBP binding loops; other site 1208658008374 ABC-ATPase subunit interface; other site 1208658008375 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208658008376 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658008377 dimer interface [polypeptide binding]; other site 1208658008378 conserved gate region; other site 1208658008379 putative PBP binding loops; other site 1208658008380 ABC-ATPase subunit interface; other site 1208658008381 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1208658008382 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 1208658008383 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1208658008384 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1208658008385 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658008386 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658008387 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 1208658008388 dimerization interface [polypeptide binding]; other site 1208658008389 AAA domain; Region: AAA_17; pfam13207 1208658008390 AAA domain; Region: AAA_18; pfam13238 1208658008391 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 1208658008392 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 1208658008393 RNA binding surface [nucleotide binding]; other site 1208658008394 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1208658008395 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1208658008396 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1208658008397 NAD synthetase; Provisional; Region: PRK13981 1208658008398 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1208658008399 multimer interface [polypeptide binding]; other site 1208658008400 active site 1208658008401 catalytic triad [active] 1208658008402 protein interface 1 [polypeptide binding]; other site 1208658008403 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 1208658008404 homodimer interface [polypeptide binding]; other site 1208658008405 NAD binding pocket [chemical binding]; other site 1208658008406 ATP binding pocket [chemical binding]; other site 1208658008407 Mg binding site [ion binding]; other site 1208658008408 active-site loop [active] 1208658008409 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1208658008410 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 1208658008411 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1208658008412 argininosuccinate lyase; Provisional; Region: PRK00855 1208658008413 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1208658008414 active sites [active] 1208658008415 tetramer interface [polypeptide binding]; other site 1208658008416 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 1208658008417 putative FMN binding site [chemical binding]; other site 1208658008418 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1208658008419 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1208658008420 DNA binding residues [nucleotide binding] 1208658008421 dimer interface [polypeptide binding]; other site 1208658008422 putative metal binding site [ion binding]; other site 1208658008423 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1208658008424 Heavy-metal-associated domain; Region: HMA; pfam00403 1208658008425 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1208658008426 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1208658008427 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 1208658008428 substrate binding pocket [chemical binding]; other site 1208658008429 membrane-bound complex binding site; other site 1208658008430 hinge residues; other site 1208658008431 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1208658008432 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658008433 dimer interface [polypeptide binding]; other site 1208658008434 conserved gate region; other site 1208658008435 putative PBP binding loops; other site 1208658008436 ABC-ATPase subunit interface; other site 1208658008437 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208658008438 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658008439 Walker A/P-loop; other site 1208658008440 ATP binding site [chemical binding]; other site 1208658008441 Q-loop/lid; other site 1208658008442 ABC transporter signature motif; other site 1208658008443 Walker B; other site 1208658008444 D-loop; other site 1208658008445 H-loop/switch region; other site 1208658008446 Rdx family; Region: Rdx; cl01407 1208658008447 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 1208658008448 apolar tunnel; other site 1208658008449 heme binding site [chemical binding]; other site 1208658008450 dimerization interface [polypeptide binding]; other site 1208658008451 NnrS protein; Region: NnrS; pfam05940 1208658008452 NnrS protein; Region: NnrS; pfam05940 1208658008453 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 1208658008454 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 1208658008455 putative catalytic site [active] 1208658008456 putative phosphate binding site [ion binding]; other site 1208658008457 active site 1208658008458 metal binding site A [ion binding]; metal-binding site 1208658008459 DNA binding site [nucleotide binding] 1208658008460 putative AP binding site [nucleotide binding]; other site 1208658008461 putative metal binding site B [ion binding]; other site 1208658008462 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1208658008463 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1208658008464 MlrC C-terminus; Region: MlrC_C; pfam07171 1208658008465 classical (c) SDRs; Region: SDR_c; cd05233 1208658008466 NAD(P) binding site [chemical binding]; other site 1208658008467 short chain dehydrogenase; Provisional; Region: PRK07577 1208658008468 active site 1208658008469 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208658008470 Amidase; Region: Amidase; cl11426 1208658008471 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208658008472 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 1208658008473 active site 1208658008474 catalytic site [active] 1208658008475 Zn binding site [ion binding]; other site 1208658008476 tetramer interface [polypeptide binding]; other site 1208658008477 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1208658008478 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658008479 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1208658008480 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 1208658008481 ligand binding site [chemical binding]; other site 1208658008482 flexible hinge region; other site 1208658008483 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1208658008484 Isochorismatase family; Region: Isochorismatase; pfam00857 1208658008485 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 1208658008486 catalytic triad [active] 1208658008487 conserved cis-peptide bond; other site 1208658008488 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208658008489 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658008490 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208658008491 DctM-like transporters; Region: DctM; pfam06808 1208658008492 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208658008493 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 1208658008494 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 1208658008495 Protein of unknown function, DUF488; Region: DUF488; pfam04343 1208658008496 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 1208658008497 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1208658008498 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1208658008499 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1208658008500 Cupin; Region: Cupin_6; pfam12852 1208658008501 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1208658008502 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 1208658008503 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1208658008504 MarR family; Region: MarR_2; pfam12802 1208658008505 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1208658008506 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658008507 Sulfatase; Region: Sulfatase; cl17466 1208658008508 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1208658008509 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658008510 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658008511 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1208658008512 putative dimerization interface [polypeptide binding]; other site 1208658008513 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_10; cd07251 1208658008514 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208658008515 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1208658008516 short chain dehydrogenase; Provisional; Region: PRK12937 1208658008517 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 1208658008518 NADP binding site [chemical binding]; other site 1208658008519 homodimer interface [polypeptide binding]; other site 1208658008520 active site 1208658008521 substrate binding site [chemical binding]; other site 1208658008522 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658008523 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658008524 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 1208658008525 putative effector binding pocket; other site 1208658008526 putative dimerization interface [polypeptide binding]; other site 1208658008527 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1208658008528 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1208658008529 active site pocket [active] 1208658008530 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1208658008531 catalytic site [active] 1208658008532 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208658008533 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658008534 DNA-binding site [nucleotide binding]; DNA binding site 1208658008535 UTRA domain; Region: UTRA; pfam07702 1208658008536 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208658008537 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658008538 dimer interface [polypeptide binding]; other site 1208658008539 conserved gate region; other site 1208658008540 putative PBP binding loops; other site 1208658008541 ABC-ATPase subunit interface; other site 1208658008542 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208658008543 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208658008544 Walker A/P-loop; other site 1208658008545 ATP binding site [chemical binding]; other site 1208658008546 Q-loop/lid; other site 1208658008547 ABC transporter signature motif; other site 1208658008548 Walker B; other site 1208658008549 D-loop; other site 1208658008550 H-loop/switch region; other site 1208658008551 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1208658008552 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 1208658008553 substrate binding pocket [chemical binding]; other site 1208658008554 membrane-bound complex binding site; other site 1208658008555 hinge residues; other site 1208658008556 choline dehydrogenase; Validated; Region: PRK02106 1208658008557 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1208658008558 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658008559 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1208658008560 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658008561 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1208658008562 DNA-binding site [nucleotide binding]; DNA binding site 1208658008563 FCD domain; Region: FCD; pfam07729 1208658008564 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658008565 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658008566 DNA-binding site [nucleotide binding]; DNA binding site 1208658008567 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1208658008568 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1208658008569 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1208658008570 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1208658008571 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1208658008572 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1208658008573 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1208658008574 putative NAD(P) binding site [chemical binding]; other site 1208658008575 active site 1208658008576 putative substrate binding site [chemical binding]; other site 1208658008577 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208658008578 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658008579 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208658008580 DctM-like transporters; Region: DctM; pfam06808 1208658008581 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208658008582 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658008583 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658008584 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1208658008585 putative dimerization interface [polypeptide binding]; other site 1208658008586 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1208658008587 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK06130 1208658008588 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208658008589 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1208658008590 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1208658008591 putative active site [active] 1208658008592 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1208658008593 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 1208658008594 S-adenosylmethionine binding site [chemical binding]; other site 1208658008595 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 1208658008596 active site 1208658008597 substrate-binding site [chemical binding]; other site 1208658008598 metal-binding site [ion binding] 1208658008599 GTP binding site [chemical binding]; other site 1208658008600 multidrug efflux protein; Reviewed; Region: PRK01766 1208658008601 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1208658008602 cation binding site [ion binding]; other site 1208658008603 allantoate amidohydrolase; Reviewed; Region: PRK12890 1208658008604 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1208658008605 active site 1208658008606 metal binding site [ion binding]; metal-binding site 1208658008607 dimer interface [polypeptide binding]; other site 1208658008608 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 1208658008609 catalytic residues [active] 1208658008610 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208658008611 EamA-like transporter family; Region: EamA; pfam00892 1208658008612 EamA-like transporter family; Region: EamA; pfam00892 1208658008613 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1208658008614 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1208658008615 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 1208658008616 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658008617 DNA-binding site [nucleotide binding]; DNA binding site 1208658008618 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 1208658008619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658008620 homodimer interface [polypeptide binding]; other site 1208658008621 catalytic residue [active] 1208658008622 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 1208658008623 C-terminal domain interface [polypeptide binding]; other site 1208658008624 GSH binding site (G-site) [chemical binding]; other site 1208658008625 dimer interface [polypeptide binding]; other site 1208658008626 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1208658008627 N-terminal domain interface [polypeptide binding]; other site 1208658008628 putative dimer interface [polypeptide binding]; other site 1208658008629 active site 1208658008630 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 1208658008631 glutathione reductase; Validated; Region: PRK06116 1208658008632 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1208658008633 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208658008634 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1208658008635 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1208658008636 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1208658008637 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1208658008638 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1208658008639 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1208658008640 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658008641 LysR family transcriptional regulator; Provisional; Region: PRK14997 1208658008642 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_2; cd08471 1208658008643 putative effector binding pocket; other site 1208658008644 putative dimerization interface [polypeptide binding]; other site 1208658008645 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1208658008646 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 1208658008647 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 1208658008648 catalytic loop [active] 1208658008649 iron binding site [ion binding]; other site 1208658008650 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1208658008651 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1208658008652 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1208658008653 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1208658008654 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1208658008655 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1208658008656 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1208658008657 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1208658008658 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1208658008659 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1208658008660 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1208658008661 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208658008662 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1208658008663 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208658008664 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1208658008665 dimer interface [polypeptide binding]; other site 1208658008666 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 1208658008667 putative substrate translocation pore; other site 1208658008668 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1208658008669 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208658008670 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1208658008671 Coenzyme A binding pocket [chemical binding]; other site 1208658008672 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1208658008673 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1208658008674 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658008675 Walker A/P-loop; other site 1208658008676 ATP binding site [chemical binding]; other site 1208658008677 Q-loop/lid; other site 1208658008678 ABC transporter signature motif; other site 1208658008679 Walker B; other site 1208658008680 D-loop; other site 1208658008681 H-loop/switch region; other site 1208658008682 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1208658008683 ZIP Zinc transporter; Region: Zip; pfam02535 1208658008684 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658008685 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658008686 DNA-binding site [nucleotide binding]; DNA binding site 1208658008687 FCD domain; Region: FCD; pfam07729 1208658008688 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1208658008689 putative transporter; Provisional; Region: PRK11660 1208658008690 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1208658008691 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 1208658008692 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 1208658008693 putative hydrophobic ligand binding site [chemical binding]; other site 1208658008694 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 1208658008695 dimerization interface [polypeptide binding]; other site 1208658008696 putative DNA binding site [nucleotide binding]; other site 1208658008697 putative Zn2+ binding site [ion binding]; other site 1208658008698 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208658008699 Domain of unknown function DUF302; Region: DUF302; cl01364 1208658008700 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 1208658008701 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1208658008702 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1208658008703 conserved cys residue [active] 1208658008704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208658008705 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208658008706 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 1208658008707 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1208658008708 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658008709 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658008710 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 1208658008711 dimerization interface [polypeptide binding]; other site 1208658008712 Predicted membrane protein [Function unknown]; Region: COG2733 1208658008713 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208658008714 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658008715 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 1208658008716 dimerization interface [polypeptide binding]; other site 1208658008717 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1208658008718 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1208658008719 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1208658008720 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208658008721 NAD(P) binding site [chemical binding]; other site 1208658008722 catalytic residues [active] 1208658008723 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1208658008724 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1208658008725 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 1208658008726 Walker A motif; other site 1208658008727 ATP binding site [chemical binding]; other site 1208658008728 Walker B motif; other site 1208658008729 arginine finger; other site 1208658008730 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1208658008731 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 1208658008732 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1208658008733 active site 1208658008734 catalytic tetrad [active] 1208658008735 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1208658008736 putative active site [active] 1208658008737 putative metal binding site [ion binding]; other site 1208658008738 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1208658008739 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658008740 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658008741 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 1208658008742 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1208658008743 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1208658008744 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208658008745 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1208658008746 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1208658008747 Walker A/P-loop; other site 1208658008748 ATP binding site [chemical binding]; other site 1208658008749 Q-loop/lid; other site 1208658008750 ABC transporter signature motif; other site 1208658008751 Walker B; other site 1208658008752 D-loop; other site 1208658008753 H-loop/switch region; other site 1208658008754 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1208658008755 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658008756 Walker A/P-loop; other site 1208658008757 ATP binding site [chemical binding]; other site 1208658008758 Q-loop/lid; other site 1208658008759 ABC transporter signature motif; other site 1208658008760 Walker B; other site 1208658008761 D-loop; other site 1208658008762 H-loop/switch region; other site 1208658008763 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1208658008764 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1208658008765 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1208658008766 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1208658008767 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1208658008768 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1208658008769 Bacteriophage protein GP30.3; Region: Phage_30_3; cl17603 1208658008770 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658008771 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658008772 DNA-binding site [nucleotide binding]; DNA binding site 1208658008773 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1208658008774 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1208658008775 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1208658008776 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208658008777 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1208658008778 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1208658008779 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658008780 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658008781 DNA-binding site [nucleotide binding]; DNA binding site 1208658008782 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208658008783 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1208658008784 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658008785 enoyl-CoA hydratase; Region: PLN02864 1208658008786 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 1208658008787 dimer interaction site [polypeptide binding]; other site 1208658008788 substrate-binding tunnel; other site 1208658008789 active site 1208658008790 catalytic site [active] 1208658008791 substrate binding site [chemical binding]; other site 1208658008792 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658008793 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658008794 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 1208658008795 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 1208658008796 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1208658008797 DNA binding residues [nucleotide binding] 1208658008798 putative dimer interface [polypeptide binding]; other site 1208658008799 putative metal binding residues [ion binding]; other site 1208658008800 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1208658008801 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1208658008802 DNA binding site [nucleotide binding] 1208658008803 domain linker motif; other site 1208658008804 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1208658008805 dimerization interface [polypeptide binding]; other site 1208658008806 ligand binding site [chemical binding]; other site 1208658008807 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1208658008808 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658008809 Walker A/P-loop; other site 1208658008810 ATP binding site [chemical binding]; other site 1208658008811 Q-loop/lid; other site 1208658008812 ABC transporter signature motif; other site 1208658008813 Walker B; other site 1208658008814 D-loop; other site 1208658008815 H-loop/switch region; other site 1208658008816 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658008817 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658008818 Walker A/P-loop; other site 1208658008819 ATP binding site [chemical binding]; other site 1208658008820 Q-loop/lid; other site 1208658008821 ABC transporter signature motif; other site 1208658008822 Walker B; other site 1208658008823 D-loop; other site 1208658008824 H-loop/switch region; other site 1208658008825 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658008826 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1208658008827 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1208658008828 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658008829 dimer interface [polypeptide binding]; other site 1208658008830 conserved gate region; other site 1208658008831 putative PBP binding loops; other site 1208658008832 ABC-ATPase subunit interface; other site 1208658008833 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208658008834 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658008835 dimer interface [polypeptide binding]; other site 1208658008836 conserved gate region; other site 1208658008837 putative PBP binding loops; other site 1208658008838 ABC-ATPase subunit interface; other site 1208658008839 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1208658008840 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 1208658008841 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 1208658008842 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 1208658008843 metal binding site [ion binding]; metal-binding site 1208658008844 dimer interface [polypeptide binding]; other site 1208658008845 Uncharacterized conserved protein [Function unknown]; Region: COG5649 1208658008846 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1208658008847 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 1208658008848 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 1208658008849 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658008850 DNA-binding site [nucleotide binding]; DNA binding site 1208658008851 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 1208658008852 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658008853 homodimer interface [polypeptide binding]; other site 1208658008854 catalytic residue [active] 1208658008855 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1208658008856 Predicted membrane protein [Function unknown]; Region: COG1289 1208658008857 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1208658008858 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1208658008859 Beta-Casp domain; Region: Beta-Casp; smart01027 1208658008860 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1208658008861 XFP N-terminal domain; Region: XFP_N; pfam09364 1208658008862 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 1208658008863 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1208658008864 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1208658008865 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1208658008866 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 1208658008867 DJ-1 family protein; Region: not_thiJ; TIGR01383 1208658008868 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1208658008869 conserved cys residue [active] 1208658008870 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658008871 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658008872 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1208658008873 putative effector binding pocket; other site 1208658008874 putative dimerization interface [polypeptide binding]; other site 1208658008875 Uncharacterized conserved protein [Function unknown]; Region: COG4925 1208658008876 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1208658008877 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 1208658008878 putative substrate translocation pore; other site 1208658008879 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 1208658008880 gating phenylalanine in ion channel; other site 1208658008881 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1208658008882 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 1208658008883 putative substrate translocation pore; other site 1208658008884 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658008885 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658008886 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1208658008887 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1208658008888 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1208658008889 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1208658008890 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1208658008891 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 1208658008892 non-specific DNA binding site [nucleotide binding]; other site 1208658008893 salt bridge; other site 1208658008894 sequence-specific DNA binding site [nucleotide binding]; other site 1208658008895 GMP synthase; Reviewed; Region: guaA; PRK00074 1208658008896 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1208658008897 AMP/PPi binding site [chemical binding]; other site 1208658008898 candidate oxyanion hole; other site 1208658008899 catalytic triad [active] 1208658008900 potential glutamine specificity residues [chemical binding]; other site 1208658008901 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 1208658008902 ATP Binding subdomain [chemical binding]; other site 1208658008903 Ligand Binding sites [chemical binding]; other site 1208658008904 Dimerization subdomain; other site 1208658008905 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1208658008906 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 1208658008907 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 1208658008908 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 1208658008909 active site 1208658008910 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 1208658008911 Predicted integral membrane proteins containing uncharacterized repeats [Function unknown]; Region: COG5563 1208658008912 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658008913 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1208658008914 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 1208658008915 dimerization interface [polypeptide binding]; other site 1208658008916 DNA binding residues [nucleotide binding] 1208658008917 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 1208658008918 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 1208658008919 dimerization domain [polypeptide binding]; other site 1208658008920 dimer interface [polypeptide binding]; other site 1208658008921 catalytic residues [active] 1208658008922 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 1208658008923 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1208658008924 catalytic residues [active] 1208658008925 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1208658008926 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1208658008927 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1208658008928 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658008929 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 1208658008930 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1208658008931 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1208658008932 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 1208658008933 hypothetical protein; Provisional; Region: PRK07907 1208658008934 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 1208658008935 metal binding site [ion binding]; metal-binding site 1208658008936 putative dimer interface [polypeptide binding]; other site 1208658008937 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1208658008938 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1208658008939 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1208658008940 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 1208658008941 dimerization interface [polypeptide binding]; other site 1208658008942 ATP binding site [chemical binding]; other site 1208658008943 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 1208658008944 dimerization interface [polypeptide binding]; other site 1208658008945 ATP binding site [chemical binding]; other site 1208658008946 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1208658008947 putative active site [active] 1208658008948 catalytic triad [active] 1208658008949 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208658008950 DctM-like transporters; Region: DctM; pfam06808 1208658008951 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208658008952 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208658008953 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1208658008954 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1208658008955 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1208658008956 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1208658008957 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1208658008958 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1208658008959 active site 1208658008960 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1208658008961 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1208658008962 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1208658008963 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1208658008964 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1208658008965 Competence protein; Region: Competence; pfam03772 1208658008966 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1208658008967 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1208658008968 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658008969 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1208658008970 active site 1208658008971 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1208658008972 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1208658008973 Walker A/P-loop; other site 1208658008974 ATP binding site [chemical binding]; other site 1208658008975 Q-loop/lid; other site 1208658008976 ABC transporter signature motif; other site 1208658008977 Walker B; other site 1208658008978 D-loop; other site 1208658008979 H-loop/switch region; other site 1208658008980 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1208658008981 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1208658008982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 1208658008983 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1208658008984 DHH family; Region: DHH; pfam01368 1208658008985 DHHA1 domain; Region: DHHA1; pfam02272 1208658008987 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658008988 NAD(P) binding site [chemical binding]; other site 1208658008989 active site 1208658008990 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1208658008991 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 1208658008992 dimer interface [polypeptide binding]; other site 1208658008993 putative anticodon binding site; other site 1208658008994 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 1208658008995 motif 1; other site 1208658008996 active site 1208658008997 motif 2; other site 1208658008998 motif 3; other site 1208658008999 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658009000 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658009001 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1208658009002 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658009003 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1208658009004 acyl-activating enzyme (AAE) consensus motif; other site 1208658009005 putative AMP binding site [chemical binding]; other site 1208658009006 putative active site [active] 1208658009007 putative CoA binding site [chemical binding]; other site 1208658009008 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658009009 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658009010 Walker A/P-loop; other site 1208658009011 ATP binding site [chemical binding]; other site 1208658009012 Q-loop/lid; other site 1208658009013 ABC transporter signature motif; other site 1208658009014 Walker B; other site 1208658009015 D-loop; other site 1208658009016 H-loop/switch region; other site 1208658009017 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 1208658009018 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208658009019 putative ligand binding site [chemical binding]; other site 1208658009020 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658009021 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 1208658009022 TM-ABC transporter signature motif; other site 1208658009023 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 1208658009024 TM-ABC transporter signature motif; other site 1208658009025 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658009026 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658009027 Walker A/P-loop; other site 1208658009028 ATP binding site [chemical binding]; other site 1208658009029 Q-loop/lid; other site 1208658009030 ABC transporter signature motif; other site 1208658009031 Walker B; other site 1208658009032 D-loop; other site 1208658009033 H-loop/switch region; other site 1208658009034 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658009035 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 1208658009036 substrate binding site [chemical binding]; other site 1208658009037 oxyanion hole (OAH) forming residues; other site 1208658009038 trimer interface [polypeptide binding]; other site 1208658009039 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 1208658009040 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1208658009041 active site 1208658009042 dimer interfaces [polypeptide binding]; other site 1208658009043 catalytic residues [active] 1208658009044 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 1208658009045 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1208658009046 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 1208658009047 catalytic loop [active] 1208658009048 iron binding site [ion binding]; other site 1208658009049 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1208658009050 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1208658009051 nucleotide binding site [chemical binding]; other site 1208658009052 co-chaperone HscB; Provisional; Region: hscB; PRK03578 1208658009053 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 1208658009054 HSP70 interaction site [polypeptide binding]; other site 1208658009055 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1208658009056 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1208658009057 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1208658009058 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1208658009059 trimerization site [polypeptide binding]; other site 1208658009060 active site 1208658009061 cysteine desulfurase; Provisional; Region: PRK14012 1208658009062 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1208658009063 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208658009064 catalytic residue [active] 1208658009065 Predicted transcriptional regulator [Transcription]; Region: COG1959 1208658009066 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1208658009067 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1208658009068 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1208658009069 active site 1208658009070 excinuclease ABC subunit B; Provisional; Region: PRK05298 1208658009071 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 1208658009072 ATP binding site [chemical binding]; other site 1208658009073 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 1208658009074 nucleotide binding region [chemical binding]; other site 1208658009075 ATP-binding site [chemical binding]; other site 1208658009076 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1208658009077 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1208658009078 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 1208658009079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658009080 homodimer interface [polypeptide binding]; other site 1208658009081 catalytic residue [active] 1208658009082 LexA repressor; Validated; Region: PRK00215 1208658009083 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1208658009084 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 1208658009085 Catalytic site [active] 1208658009086 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208658009087 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658009088 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658009089 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1208658009090 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 1208658009091 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658009092 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658009093 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658009094 active site 1208658009095 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1208658009096 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658009097 NAD(P) binding site [chemical binding]; other site 1208658009098 active site 1208658009099 thiolase; Provisional; Region: PRK06158 1208658009100 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1208658009101 active site 1208658009102 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1208658009103 DUF35 OB-fold domain; Region: DUF35; pfam01796 1208658009104 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658009105 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 1208658009106 substrate binding site [chemical binding]; other site 1208658009107 oxyanion hole (OAH) forming residues; other site 1208658009108 trimer interface [polypeptide binding]; other site 1208658009109 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 1208658009110 putative active site [active] 1208658009111 putative catalytic site [active] 1208658009112 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658009113 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658009114 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658009115 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1208658009116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658009117 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 1208658009118 dimerization interface [polypeptide binding]; other site 1208658009119 substrate binding pocket [chemical binding]; other site 1208658009120 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1208658009121 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 1208658009122 Walker A motif; other site 1208658009123 ATP binding site [chemical binding]; other site 1208658009124 Walker B motif; other site 1208658009125 arginine finger; other site 1208658009126 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1208658009127 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1208658009128 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1208658009129 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1208658009130 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 1208658009131 Walker A motif; other site 1208658009132 ATP binding site [chemical binding]; other site 1208658009133 Walker B motif; other site 1208658009134 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1208658009135 Clp protease; Region: CLP_protease; pfam00574 1208658009136 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1208658009137 oligomer interface [polypeptide binding]; other site 1208658009138 active site residues [active] 1208658009139 trigger factor; Provisional; Region: tig; PRK01490 1208658009140 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1208658009141 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1208658009142 hypothetical protein; Provisional; Region: PRK05208 1208658009143 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 1208658009144 DNA-binding site [nucleotide binding]; DNA binding site 1208658009145 RNA-binding motif; other site 1208658009146 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1208658009147 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 1208658009148 DNA-binding site [nucleotide binding]; DNA binding site 1208658009149 RNA-binding motif; other site 1208658009150 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658009151 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1208658009152 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 1208658009153 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658009154 homodimer interface [polypeptide binding]; other site 1208658009155 catalytic residue [active] 1208658009156 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1208658009157 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 1208658009158 trimer interface [polypeptide binding]; other site 1208658009159 active site 1208658009160 substrate binding site [chemical binding]; other site 1208658009161 CoA binding site [chemical binding]; other site 1208658009162 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1208658009163 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1208658009164 metal binding site [ion binding]; metal-binding site 1208658009165 dimer interface [polypeptide binding]; other site 1208658009166 HemK family putative methylases; Region: hemK_fam; TIGR00536 1208658009167 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 1208658009168 S-adenosylmethionine binding site [chemical binding]; other site 1208658009169 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1208658009170 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208658009171 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208658009172 ABC transporter; Region: ABC_tran_2; pfam12848 1208658009173 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208658009174 Secretin and TonB N terminus short domain; Region: STN; smart00965 1208658009175 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 1208658009176 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1208658009177 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1208658009178 Part of AAA domain; Region: AAA_19; pfam13245 1208658009179 Family description; Region: UvrD_C_2; pfam13538 1208658009180 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 1208658009181 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1208658009182 Di-iron ligands [ion binding]; other site 1208658009183 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1208658009184 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 1208658009185 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1208658009186 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1208658009187 active site 1208658009188 substrate binding site [chemical binding]; other site 1208658009189 cosubstrate binding site; other site 1208658009190 catalytic site [active] 1208658009191 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1208658009192 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1208658009193 active site 1208658009194 Riboflavin kinase; Region: Flavokinase; smart00904 1208658009195 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1208658009196 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1208658009197 active site 1208658009198 HIGH motif; other site 1208658009199 nucleotide binding site [chemical binding]; other site 1208658009200 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1208658009201 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1208658009202 active site 1208658009203 KMSKS motif; other site 1208658009204 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1208658009205 tRNA binding surface [nucleotide binding]; other site 1208658009206 anticodon binding site; other site 1208658009207 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1208658009208 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1208658009209 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1208658009210 Flavoprotein; Region: Flavoprotein; pfam02441 1208658009211 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1208658009212 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 1208658009213 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208658009214 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 1208658009215 putative DNA binding site [nucleotide binding]; other site 1208658009216 putative Zn2+ binding site [ion binding]; other site 1208658009217 AsnC family; Region: AsnC_trans_reg; pfam01037 1208658009218 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1208658009219 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1208658009220 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1208658009221 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1208658009222 trimer interface [polypeptide binding]; other site 1208658009223 active site 1208658009224 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208658009225 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208658009226 Walker A/P-loop; other site 1208658009227 ATP binding site [chemical binding]; other site 1208658009228 Q-loop/lid; other site 1208658009229 ABC transporter signature motif; other site 1208658009230 Walker B; other site 1208658009231 D-loop; other site 1208658009232 H-loop/switch region; other site 1208658009233 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658009234 dimer interface [polypeptide binding]; other site 1208658009235 conserved gate region; other site 1208658009236 putative PBP binding loops; other site 1208658009237 ABC-ATPase subunit interface; other site 1208658009238 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658009239 dimer interface [polypeptide binding]; other site 1208658009240 conserved gate region; other site 1208658009241 putative PBP binding loops; other site 1208658009242 ABC-ATPase subunit interface; other site 1208658009243 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 1208658009244 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 1208658009245 substrate binding pocket [chemical binding]; other site 1208658009246 membrane-bound complex binding site; other site 1208658009247 hinge residues; other site 1208658009248 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208658009249 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 1208658009250 putative ligand binding site [chemical binding]; other site 1208658009251 ornithine cyclodeaminase; Validated; Region: PRK06141 1208658009252 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1208658009253 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1208658009255 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1208658009256 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1208658009257 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1208658009258 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1208658009259 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 1208658009260 dimerization domain swap beta strand [polypeptide binding]; other site 1208658009261 regulatory protein interface [polypeptide binding]; other site 1208658009262 active site 1208658009263 regulatory phosphorylation site [posttranslational modification]; other site 1208658009264 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 1208658009265 active pocket/dimerization site; other site 1208658009266 active site 1208658009267 phosphorylation site [posttranslational modification] 1208658009268 glutathione synthetase; Provisional; Region: PRK05246 1208658009269 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1208658009270 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1208658009271 translation initiation factor IF-3; Region: infC; TIGR00168 1208658009272 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1208658009273 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1208658009274 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1208658009275 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 1208658009276 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1208658009277 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 1208658009278 active site 1208658009279 dimer interface [polypeptide binding]; other site 1208658009280 motif 1; other site 1208658009281 motif 2; other site 1208658009282 motif 3; other site 1208658009283 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 1208658009284 anticodon binding site; other site 1208658009285 Response regulator receiver domain; Region: Response_reg; pfam00072 1208658009286 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 1208658009287 active site 1208658009288 phosphorylation site [posttranslational modification] 1208658009289 intermolecular recognition site; other site 1208658009290 dimerization interface [polypeptide binding]; other site 1208658009291 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 1208658009292 DNA binding residues [nucleotide binding] 1208658009293 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1208658009294 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 1208658009295 FeS/SAM binding site; other site 1208658009296 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 1208658009297 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1208658009298 amphipathic channel; other site 1208658009299 Asn-Pro-Ala signature motifs; other site 1208658009300 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1208658009301 YheO-like PAS domain; Region: PAS_6; pfam08348 1208658009302 HTH domain; Region: HTH_22; pfam13309 1208658009303 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658009305 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1208658009306 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 1208658009307 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 1208658009308 active site 1208658009309 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1208658009310 DctM-like transporters; Region: DctM; pfam06808 1208658009311 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208658009312 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1208658009313 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1208658009314 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658009315 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1208658009316 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1208658009317 dimerization interface 3.5A [polypeptide binding]; other site 1208658009318 active site 1208658009319 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1208658009320 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1208658009321 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1208658009322 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1208658009323 tartrate dehydrogenase; Region: TTC; TIGR02089 1208658009324 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1208658009325 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 1208658009326 substrate binding site [chemical binding]; other site 1208658009327 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1208658009328 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1208658009329 substrate binding site [chemical binding]; other site 1208658009330 ligand binding site [chemical binding]; other site 1208658009331 PBP superfamily domain; Region: PBP_like_2; pfam12849 1208658009332 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1208658009333 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1208658009334 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208658009335 Walker A/P-loop; other site 1208658009336 ATP binding site [chemical binding]; other site 1208658009337 Q-loop/lid; other site 1208658009338 ABC transporter signature motif; other site 1208658009339 Walker B; other site 1208658009340 D-loop; other site 1208658009341 H-loop/switch region; other site 1208658009342 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658009343 dimer interface [polypeptide binding]; other site 1208658009344 conserved gate region; other site 1208658009345 putative PBP binding loops; other site 1208658009346 ABC-ATPase subunit interface; other site 1208658009347 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1208658009348 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1208658009349 PBP superfamily domain; Region: PBP_like; pfam12727 1208658009350 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 1208658009351 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1208658009352 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1208658009353 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1208658009354 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 1208658009355 [4Fe-4S] binding site [ion binding]; other site 1208658009356 molybdopterin cofactor binding site; other site 1208658009357 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 1208658009358 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 1208658009359 molybdopterin cofactor binding site; other site 1208658009360 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 1208658009361 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1208658009362 4Fe-4S binding domain; Region: Fer4; pfam00037 1208658009363 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1208658009364 4Fe-4S binding domain; Region: Fer4; pfam00037 1208658009365 4Fe-4S binding domain; Region: Fer4; pfam00037 1208658009366 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1208658009367 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 1208658009368 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 1208658009369 Domain of unknown function DUF59; Region: DUF59; pfam01883 1208658009370 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 1208658009371 Walker A motif; other site 1208658009372 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1208658009373 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1208658009374 GTP binding site; other site 1208658009375 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1208658009376 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 1208658009377 dimer interface [polypeptide binding]; other site 1208658009378 putative functional site; other site 1208658009379 putative MPT binding site; other site 1208658009380 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 1208658009381 Walker A motif; other site 1208658009382 Peptidase family M48; Region: Peptidase_M48; pfam01435 1208658009383 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1208658009384 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1208658009385 Tetramer interface [polypeptide binding]; other site 1208658009386 active site 1208658009387 FMN-binding site [chemical binding]; other site 1208658009388 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208658009389 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208658009390 I-site; other site 1208658009391 active site 1208658009392 metal binding site [ion binding]; metal-binding site 1208658009393 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 1208658009394 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208658009395 metal binding site [ion binding]; metal-binding site 1208658009396 active site 1208658009397 I-site; other site 1208658009398 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 1208658009399 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1208658009400 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 1208658009401 dimer interface [polypeptide binding]; other site 1208658009402 phosphorylation site [posttranslational modification] 1208658009403 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 1208658009404 ATP binding site [chemical binding]; other site 1208658009405 Mg2+ binding site [ion binding]; other site 1208658009406 G-X-G motif; other site 1208658009407 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208658009408 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 1208658009409 active site 1208658009410 phosphorylation site [posttranslational modification] 1208658009411 intermolecular recognition site; other site 1208658009412 dimerization interface [polypeptide binding]; other site 1208658009413 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 1208658009414 DNA binding site [nucleotide binding] 1208658009415 hypothetical protein; Validated; Region: PRK00029 1208658009416 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1208658009417 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 1208658009418 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1208658009419 FOG: CBS domain [General function prediction only]; Region: COG0517 1208658009420 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 1208658009421 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1208658009422 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 1208658009423 FMN binding site [chemical binding]; other site 1208658009424 active site 1208658009425 catalytic residues [active] 1208658009426 substrate binding site [chemical binding]; other site 1208658009427 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1208658009428 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 1208658009429 putative active site [active] 1208658009430 putative substrate binding site [chemical binding]; other site 1208658009431 ATP binding site [chemical binding]; other site 1208658009432 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1208658009433 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1208658009434 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1208658009435 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1208658009436 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1208658009437 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 1208658009438 phosphopeptide binding site; other site 1208658009439 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1208658009440 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 1208658009441 ATP binding site [chemical binding]; other site 1208658009442 Walker A motif; other site 1208658009443 hexamer interface [polypeptide binding]; other site 1208658009444 Walker B motif; other site 1208658009445 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1208658009446 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1208658009447 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 1208658009448 Predicted small secreted protein [Function unknown]; Region: COG5510 1208658009449 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 1208658009450 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1208658009451 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 1208658009452 dimer interface [polypeptide binding]; other site 1208658009453 substrate binding site [chemical binding]; other site 1208658009454 metal binding sites [ion binding]; metal-binding site 1208658009455 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1208658009456 HemY protein N-terminus; Region: HemY_N; pfam07219 1208658009457 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 1208658009458 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 1208658009459 active site 1208658009460 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1208658009461 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 1208658009462 domain interfaces; other site 1208658009463 active site 1208658009464 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1208658009465 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1208658009466 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1208658009467 CoA binding domain; Region: CoA_binding; smart00881 1208658009468 CoA-ligase; Region: Ligase_CoA; pfam00549 1208658009469 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1208658009470 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1208658009471 CoA-ligase; Region: Ligase_CoA; pfam00549 1208658009472 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 1208658009473 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1208658009474 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 1208658009475 THF binding site; other site 1208658009476 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 1208658009477 substrate binding site [chemical binding]; other site 1208658009478 THF binding site; other site 1208658009479 zinc-binding site [ion binding]; other site 1208658009480 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1208658009481 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658009482 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 1208658009483 putative dimerization interface [polypeptide binding]; other site 1208658009484 RecX family; Region: RecX; cl00936 1208658009485 recombinase A; Provisional; Region: recA; PRK09354 1208658009486 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 1208658009487 hexamer interface [polypeptide binding]; other site 1208658009488 Walker A motif; other site 1208658009489 ATP binding site [chemical binding]; other site 1208658009490 Walker B motif; other site 1208658009491 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208658009492 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 1208658009493 active site 1208658009494 phosphorylation site [posttranslational modification] 1208658009495 intermolecular recognition site; other site 1208658009496 dimerization interface [polypeptide binding]; other site 1208658009497 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 1208658009498 DNA binding site [nucleotide binding] 1208658009499 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1208658009500 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1208658009501 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 1208658009502 dimer interface [polypeptide binding]; other site 1208658009503 phosphorylation site [posttranslational modification] 1208658009504 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 1208658009505 ATP binding site [chemical binding]; other site 1208658009506 G-X-G motif; other site 1208658009507 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 1208658009508 putative substrate translocation pore; other site 1208658009509 enoyl-CoA hydratase; Provisional; Region: PRK06144 1208658009510 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 1208658009511 substrate binding site [chemical binding]; other site 1208658009512 oxyanion hole (OAH) forming residues; other site 1208658009513 trimer interface [polypeptide binding]; other site 1208658009514 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1208658009515 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658009516 Walker A/P-loop; other site 1208658009517 ATP binding site [chemical binding]; other site 1208658009518 Q-loop/lid; other site 1208658009519 ABC transporter signature motif; other site 1208658009520 Walker B; other site 1208658009521 D-loop; other site 1208658009522 H-loop/switch region; other site 1208658009523 TOBE domain; Region: TOBE_2; pfam08402 1208658009524 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1208658009525 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658009526 dimer interface [polypeptide binding]; other site 1208658009527 conserved gate region; other site 1208658009528 putative PBP binding loops; other site 1208658009529 ABC-ATPase subunit interface; other site 1208658009530 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658009531 dimer interface [polypeptide binding]; other site 1208658009532 conserved gate region; other site 1208658009533 putative PBP binding loops; other site 1208658009534 ABC-ATPase subunit interface; other site 1208658009535 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1208658009536 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1208658009537 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208658009538 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658009539 NAD(P) binding site [chemical binding]; other site 1208658009540 active site 1208658009541 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 1208658009542 active site 2 [active] 1208658009543 active site 1 [active] 1208658009544 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1208658009545 DUF35 OB-fold domain; Region: DUF35; pfam01796 1208658009546 thiolase; Provisional; Region: PRK06158 1208658009547 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1208658009548 active site 1208658009549 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208658009550 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658009551 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 1208658009552 dimerization interface [polypeptide binding]; other site 1208658009553 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658009554 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658009555 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1208658009556 aspartate carbamoyltransferase; Provisional; Region: PRK11891 1208658009557 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1208658009558 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1208658009559 Entericidin EcnA/B family; Region: Entericidin; cl02322 1208658009560 Endonuclease I; Region: Endonuclease_1; pfam04231 1208658009561 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658009562 DNA-binding site [nucleotide binding]; DNA binding site 1208658009563 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 1208658009564 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 1208658009565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658009566 homodimer interface [polypeptide binding]; other site 1208658009567 catalytic residue [active] 1208658009568 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1208658009569 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1208658009570 AsnC family; Region: AsnC_trans_reg; pfam01037 1208658009571 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1208658009572 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1208658009573 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1208658009574 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208658009575 Coenzyme A binding pocket [chemical binding]; other site 1208658009576 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 1208658009577 S-adenosylmethionine binding site [chemical binding]; other site 1208658009578 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 1208658009579 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 1208658009580 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1208658009581 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1208658009582 DNA binding residues [nucleotide binding] 1208658009583 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 1208658009584 IHF - DNA interface [nucleotide binding]; other site 1208658009585 IHF dimer interface [polypeptide binding]; other site 1208658009586 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1208658009587 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 1208658009588 putative tRNA-binding site [nucleotide binding]; other site 1208658009589 B3/4 domain; Region: B3_4; pfam03483 1208658009590 tRNA synthetase B5 domain; Region: B5; smart00874 1208658009591 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 1208658009592 dimer interface [polypeptide binding]; other site 1208658009593 motif 1; other site 1208658009594 motif 3; other site 1208658009595 motif 2; other site 1208658009596 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1208658009597 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1208658009598 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1208658009599 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 1208658009600 dimer interface [polypeptide binding]; other site 1208658009601 motif 1; other site 1208658009602 active site 1208658009603 motif 2; other site 1208658009604 motif 3; other site 1208658009605 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1208658009606 23S rRNA binding site [nucleotide binding]; other site 1208658009607 L21 binding site [polypeptide binding]; other site 1208658009608 L13 binding site [polypeptide binding]; other site 1208658009609 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1208658009610 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1208658009611 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1208658009612 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1208658009613 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1208658009614 Membrane fusogenic activity; Region: BMFP; pfam04380 1208658009615 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1208658009616 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1208658009617 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1208658009618 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1208658009619 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208658009620 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658009621 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658009622 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658009623 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 1208658009624 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208658009625 putative substrate translocation pore; other site 1208658009626 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658009627 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658009628 Walker A/P-loop; other site 1208658009629 ATP binding site [chemical binding]; other site 1208658009630 Q-loop/lid; other site 1208658009631 ABC transporter signature motif; other site 1208658009632 Walker B; other site 1208658009633 D-loop; other site 1208658009634 H-loop/switch region; other site 1208658009635 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658009636 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658009637 Walker A/P-loop; other site 1208658009638 ATP binding site [chemical binding]; other site 1208658009639 Q-loop/lid; other site 1208658009640 ABC transporter signature motif; other site 1208658009641 Walker B; other site 1208658009642 D-loop; other site 1208658009643 H-loop/switch region; other site 1208658009644 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658009645 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 1208658009646 TM-ABC transporter signature motif; other site 1208658009647 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658009648 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 1208658009649 TM-ABC transporter signature motif; other site 1208658009650 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208658009651 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 1208658009652 dimerization interface [polypeptide binding]; other site 1208658009653 ligand binding site [chemical binding]; other site 1208658009654 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 1208658009655 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1208658009656 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1208658009657 Glutamate binding site [chemical binding]; other site 1208658009658 NAD binding site [chemical binding]; other site 1208658009659 catalytic residues [active] 1208658009660 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1208658009661 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1208658009662 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1208658009663 mce related protein; Region: MCE; pfam02470 1208658009664 mce related protein; Region: MCE; pfam02470 1208658009665 mce related protein; Region: MCE; pfam02470 1208658009666 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1208658009667 Paraquat-inducible protein A; Region: PqiA; pfam04403 1208658009668 Paraquat-inducible protein A; Region: PqiA; pfam04403 1208658009669 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1208658009670 Clp amino terminal domain; Region: Clp_N; pfam02861 1208658009671 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 1208658009672 Walker A motif; other site 1208658009673 ATP binding site [chemical binding]; other site 1208658009674 Walker B motif; other site 1208658009675 arginine finger; other site 1208658009676 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 1208658009677 Walker A motif; other site 1208658009678 ATP binding site [chemical binding]; other site 1208658009679 Walker B motif; other site 1208658009680 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1208658009681 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 1208658009682 Transglycosylase; Region: Transgly; pfam00912 1208658009683 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1208658009684 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1208658009685 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1208658009686 MG2 domain; Region: A2M_N; pfam01835 1208658009687 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1208658009688 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 1208658009689 surface patch; other site 1208658009690 thioester region; other site 1208658009691 specificity defining residues; other site 1208658009692 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1208658009693 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 1208658009694 DNA-binding site [nucleotide binding]; DNA binding site 1208658009695 RNA-binding motif; other site 1208658009696 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1208658009697 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1208658009698 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 1208658009699 dimer interface [polypeptide binding]; other site 1208658009700 active site 1208658009701 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 1208658009702 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1208658009703 putative ion selectivity filter; other site 1208658009704 putative pore gating glutamate residue; other site 1208658009705 putative H+/Cl- coupling transport residue; other site 1208658009706 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1208658009707 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1208658009708 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1208658009709 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1208658009710 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 1208658009711 generic binding surface II; other site 1208658009712 generic binding surface I; other site 1208658009713 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1208658009714 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1208658009715 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1208658009716 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1208658009717 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1208658009718 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1208658009719 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1208658009720 Ligand binding site; other site 1208658009721 oligomer interface; other site 1208658009722 adenylate kinase; Reviewed; Region: adk; PRK00279 1208658009723 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 1208658009724 AMP-binding site [chemical binding]; other site 1208658009725 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1208658009726 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1208658009727 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1208658009728 NAD binding site [chemical binding]; other site 1208658009729 homodimer interface [polypeptide binding]; other site 1208658009730 homotetramer interface [polypeptide binding]; other site 1208658009731 active site 1208658009732 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1208658009733 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1208658009734 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1208658009735 FecR protein; Region: FecR; pfam04773 1208658009736 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1208658009737 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 1208658009738 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658009739 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1208658009740 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1208658009741 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1208658009742 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658009743 DNA-binding site [nucleotide binding]; DNA binding site 1208658009744 FCD domain; Region: FCD; pfam07729 1208658009745 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1208658009746 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1208658009747 inhibitor site; inhibition site 1208658009748 active site 1208658009749 dimer interface [polypeptide binding]; other site 1208658009750 catalytic residue [active] 1208658009751 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658009752 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1208658009753 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1208658009754 putative ligand binding site [chemical binding]; other site 1208658009755 NAD binding site [chemical binding]; other site 1208658009756 catalytic site [active] 1208658009757 short chain dehydrogenase; Provisional; Region: PRK12744 1208658009758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658009759 NAD(P) binding site [chemical binding]; other site 1208658009760 active site 1208658009761 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658009762 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658009763 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 1208658009764 putative effector binding pocket; other site 1208658009765 putative dimerization interface [polypeptide binding]; other site 1208658009766 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 1208658009767 acetylornithine aminotransferase; Provisional; Region: PRK02627 1208658009768 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 1208658009769 inhibitor-cofactor binding pocket; inhibition site 1208658009770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658009771 catalytic residue [active] 1208658009772 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1208658009773 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1208658009774 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1208658009775 argininosuccinate synthase; Validated; Region: PRK05370 1208658009776 argininosuccinate synthase; Provisional; Region: PRK13820 1208658009777 K+ potassium transporter; Region: K_trans; cl15781 1208658009778 potassium uptake protein; Region: kup; TIGR00794 1208658009779 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1208658009780 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 1208658009781 dimer interface [polypeptide binding]; other site 1208658009782 phosphorylation site [posttranslational modification] 1208658009783 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 1208658009784 ATP binding site [chemical binding]; other site 1208658009785 Mg2+ binding site [ion binding]; other site 1208658009786 G-X-G motif; other site 1208658009787 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208658009788 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 1208658009789 active site 1208658009790 phosphorylation site [posttranslational modification] 1208658009791 intermolecular recognition site; other site 1208658009792 dimerization interface [polypeptide binding]; other site 1208658009793 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 1208658009794 DNA binding site [nucleotide binding] 1208658009795 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1208658009796 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1208658009797 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1208658009798 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1208658009799 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 1208658009800 IHF dimer interface [polypeptide binding]; other site 1208658009801 IHF - DNA interface [nucleotide binding]; other site 1208658009802 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1208658009803 hypothetical protein; Provisional; Region: PRK05939 1208658009804 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 1208658009805 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208658009806 catalytic residue [active] 1208658009807 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1208658009808 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1208658009809 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1208658009810 ribonuclease R; Region: RNase_R; TIGR02063 1208658009811 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1208658009812 RNA binding site [nucleotide binding]; other site 1208658009813 RNB domain; Region: RNB; pfam00773 1208658009814 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 1208658009815 RNA binding site [nucleotide binding]; other site 1208658009816 DTW domain; Region: DTW; cl01221 1208658009817 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1208658009818 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208658009819 Coenzyme A binding pocket [chemical binding]; other site 1208658009820 Predicted permeases [General function prediction only]; Region: COG0679 1208658009821 Sulphur transport; Region: Sulf_transp; pfam04143 1208658009822 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1208658009823 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 1208658009824 active site 1208658009825 FMN binding site [chemical binding]; other site 1208658009826 substrate binding site [chemical binding]; other site 1208658009827 3Fe-4S cluster binding site [ion binding]; other site 1208658009828 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1208658009829 PLD-like domain; Region: PLDc_2; pfam13091 1208658009830 putative active site [active] 1208658009831 catalytic site [active] 1208658009832 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1208658009833 PLD-like domain; Region: PLDc_2; pfam13091 1208658009834 putative active site [active] 1208658009835 catalytic site [active] 1208658009836 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 1208658009837 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 1208658009838 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 1208658009839 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1208658009842 ABC transporter G family member; Provisional; Region: PLN03140 1208658009843 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1208658009844 Zn2+ binding site [ion binding]; other site 1208658009845 Mg2+ binding site [ion binding]; other site 1208658009846 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 1208658009847 heme-binding site [chemical binding]; other site 1208658009848 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208658009849 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208658009850 metal binding site [ion binding]; metal-binding site 1208658009851 active site 1208658009852 I-site; other site 1208658009853 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 1208658009854 Isochorismatase family; Region: Isochorismatase; pfam00857 1208658009855 catalytic triad [active] 1208658009856 metal binding site [ion binding]; metal-binding site 1208658009857 conserved cis-peptide bond; other site 1208658009858 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1208658009859 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1208658009860 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 1208658009861 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 1208658009862 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1208658009863 adenylosuccinate lyase; Provisional; Region: PRK09285 1208658009864 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1208658009865 tetramer interface [polypeptide binding]; other site 1208658009866 active site 1208658009867 putative glutathione S-transferase; Provisional; Region: PRK10357 1208658009868 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 1208658009869 putative C-terminal domain interface [polypeptide binding]; other site 1208658009870 putative GSH binding site (G-site) [chemical binding]; other site 1208658009871 putative dimer interface [polypeptide binding]; other site 1208658009872 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1208658009873 dimer interface [polypeptide binding]; other site 1208658009874 N-terminal domain interface [polypeptide binding]; other site 1208658009875 putative substrate binding pocket (H-site) [chemical binding]; other site 1208658009876 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1208658009877 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1208658009878 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 1208658009879 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208658009880 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658009881 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 1208658009882 dimerization interface [polypeptide binding]; other site 1208658009883 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658009884 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 1208658009885 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1208658009886 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1208658009887 ligand binding site [chemical binding]; other site 1208658009888 homodimer interface [polypeptide binding]; other site 1208658009889 NAD(P) binding site [chemical binding]; other site 1208658009890 trimer interface B [polypeptide binding]; other site 1208658009891 trimer interface A [polypeptide binding]; other site 1208658009892 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1208658009893 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1208658009894 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1208658009895 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208658009896 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1208658009897 outer membrane receptor FepA; Provisional; Region: PRK13528 1208658009898 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 1208658009899 N-terminal plug; other site 1208658009900 ligand-binding site [chemical binding]; other site 1208658009901 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1208658009902 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1208658009903 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1208658009904 Cysteine-rich domain; Region: CCG; pfam02754 1208658009905 Cysteine-rich domain; Region: CCG; pfam02754 1208658009906 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1208658009907 FAD binding domain; Region: FAD_binding_4; pfam01565 1208658009908 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1208658009909 FAD binding domain; Region: FAD_binding_4; pfam01565 1208658009910 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1208658009911 FAD binding domain; Region: FAD_binding_4; pfam01565 1208658009912 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1208658009913 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1208658009914 Peptidase C80 family; Region: Peptidase_C80; pfam11713 1208658009915 Peptidase C80 family; Region: Peptidase_C80; pfam11713 1208658009916 Peptidase C80 family; Region: Peptidase_C80; pfam11713 1208658009917 Peptidase C80 family; Region: Peptidase_C80; pfam11713 1208658009918 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1208658009919 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1208658009920 protease TldD; Provisional; Region: tldD; PRK10735 1208658009921 nitrilase; Region: PLN02798 1208658009922 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1208658009923 putative active site [active] 1208658009924 catalytic triad [active] 1208658009925 dimer interface [polypeptide binding]; other site 1208658009926 H-NS histone family; Region: Histone_HNS; pfam00816 1208658009927 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1208658009928 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1208658009929 aminopeptidase N; Provisional; Region: pepN; PRK14015 1208658009930 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1208658009931 active site 1208658009932 Zn binding site [ion binding]; other site 1208658009933 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1208658009934 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 1208658009935 AMP binding site [chemical binding]; other site 1208658009936 metal binding site [ion binding]; metal-binding site 1208658009937 active site 1208658009938 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1208658009939 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1208658009940 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 1208658009941 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658009942 catalytic residue [active] 1208658009943 homoserine dehydrogenase; Provisional; Region: PRK06349 1208658009944 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1208658009945 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1208658009946 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 1208658009947 aminotransferase; Validated; Region: PRK08175 1208658009948 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 1208658009949 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658009950 homodimer interface [polypeptide binding]; other site 1208658009951 catalytic residue [active] 1208658009952 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 1208658009953 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1208658009954 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 1208658009955 catalytic triad [active] 1208658009956 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1208658009957 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1208658009958 putative active site [active] 1208658009959 PhoH-like protein; Region: PhoH; pfam02562 1208658009960 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1208658009961 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 1208658009962 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1208658009963 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1208658009964 replicative DNA helicase; Provisional; Region: PRK07004 1208658009965 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1208658009966 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 1208658009967 Walker A motif; other site 1208658009968 ATP binding site [chemical binding]; other site 1208658009969 Walker B motif; other site 1208658009970 DNA binding loops [nucleotide binding] 1208658009971 serine/threonine protein kinase; Provisional; Region: PRK14879 1208658009972 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1208658009973 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1208658009974 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1208658009975 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1208658009976 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1208658009977 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1208658009978 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1208658009979 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1208658009980 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 1208658009981 TPP-binding site; other site 1208658009982 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 1208658009983 PYR/PP interface [polypeptide binding]; other site 1208658009984 dimer interface [polypeptide binding]; other site 1208658009985 TPP binding site [chemical binding]; other site 1208658009986 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1208658009987 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1208658009988 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1208658009989 substrate binding pocket [chemical binding]; other site 1208658009990 chain length determination region; other site 1208658009991 substrate-Mg2+ binding site; other site 1208658009992 catalytic residues [active] 1208658009993 aspartate-rich region 1; other site 1208658009994 active site lid residues [active] 1208658009995 aspartate-rich region 2; other site 1208658009996 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1208658009997 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658009998 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658009999 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658010000 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658010001 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1208658010002 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1208658010003 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1208658010004 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 1208658010005 [2Fe-2S] cluster binding site [ion binding]; other site 1208658010006 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1208658010007 alpha subunit interface [polypeptide binding]; other site 1208658010008 active site 1208658010009 substrate binding site [chemical binding]; other site 1208658010010 Fe binding site [ion binding]; other site 1208658010011 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1208658010012 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 1208658010013 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1208658010014 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1208658010015 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 1208658010016 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 1208658010017 motif II; other site 1208658010018 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 1208658010019 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658010020 putative PBP binding loops; other site 1208658010021 dimer interface [polypeptide binding]; other site 1208658010022 ABC-ATPase subunit interface; other site 1208658010023 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658010024 dimer interface [polypeptide binding]; other site 1208658010025 conserved gate region; other site 1208658010026 putative PBP binding loops; other site 1208658010027 ABC-ATPase subunit interface; other site 1208658010028 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 1208658010029 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658010030 Walker A/P-loop; other site 1208658010031 ATP binding site [chemical binding]; other site 1208658010032 Q-loop/lid; other site 1208658010033 ABC transporter signature motif; other site 1208658010034 Walker B; other site 1208658010035 D-loop; other site 1208658010036 H-loop/switch region; other site 1208658010037 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1208658010038 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658010039 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 1208658010040 dimerization interface [polypeptide binding]; other site 1208658010041 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 1208658010042 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 1208658010043 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1208658010044 active site residue [active] 1208658010045 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 1208658010046 active site residue [active] 1208658010047 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208658010048 heat shock protein HtpX; Provisional; Region: PRK05457 1208658010049 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1208658010050 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1208658010051 NADP binding site [chemical binding]; other site 1208658010052 dimer interface [polypeptide binding]; other site 1208658010053 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208658010054 EamA-like transporter family; Region: EamA; pfam00892 1208658010055 EamA-like transporter family; Region: EamA; pfam00892 1208658010056 MarR family; Region: MarR_2; cl17246 1208658010057 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1208658010058 Outer membrane efflux protein; Region: OEP; pfam02321 1208658010059 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1208658010060 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1208658010061 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1208658010062 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208658010063 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1208658010064 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 1208658010065 putative substrate translocation pore; other site 1208658010066 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 1208658010067 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1208658010068 tartrate dehydrogenase; Region: TTC; TIGR02089 1208658010069 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 1208658010070 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658010071 DNA-binding site [nucleotide binding]; DNA binding site 1208658010072 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 1208658010073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658010074 homodimer interface [polypeptide binding]; other site 1208658010075 catalytic residue [active] 1208658010076 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1208658010077 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 1208658010078 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208658010079 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658010080 dimer interface [polypeptide binding]; other site 1208658010081 conserved gate region; other site 1208658010082 putative PBP binding loops; other site 1208658010083 ABC-ATPase subunit interface; other site 1208658010084 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1208658010085 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658010086 putative PBP binding loops; other site 1208658010087 dimer interface [polypeptide binding]; other site 1208658010088 ABC-ATPase subunit interface; other site 1208658010089 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1208658010090 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658010091 Walker A/P-loop; other site 1208658010092 ATP binding site [chemical binding]; other site 1208658010093 Q-loop/lid; other site 1208658010094 ABC transporter signature motif; other site 1208658010095 Walker B; other site 1208658010096 D-loop; other site 1208658010097 H-loop/switch region; other site 1208658010098 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1208658010099 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658010100 Walker A/P-loop; other site 1208658010101 ATP binding site [chemical binding]; other site 1208658010102 Q-loop/lid; other site 1208658010103 ABC transporter signature motif; other site 1208658010104 Walker B; other site 1208658010105 D-loop; other site 1208658010106 H-loop/switch region; other site 1208658010107 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658010108 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 1208658010109 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 1208658010110 inhibitor-cofactor binding pocket; inhibition site 1208658010111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658010112 catalytic residue [active] 1208658010113 Cupin domain; Region: Cupin_2; cl17218 1208658010114 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1208658010115 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1208658010116 active site 1208658010117 Zn binding site [ion binding]; other site 1208658010118 allantoate amidohydrolase; Reviewed; Region: PRK12893 1208658010119 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1208658010120 active site 1208658010121 metal binding site [ion binding]; metal-binding site 1208658010122 dimer interface [polypeptide binding]; other site 1208658010123 EamA-like transporter family; Region: EamA; pfam00892 1208658010124 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208658010125 EamA-like transporter family; Region: EamA; pfam00892 1208658010126 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208658010127 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1208658010128 NAD(P) binding site [chemical binding]; other site 1208658010129 catalytic residues [active] 1208658010130 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1208658010131 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1208658010132 putative ligand binding site [chemical binding]; other site 1208658010133 NAD binding site [chemical binding]; other site 1208658010134 dimerization interface [polypeptide binding]; other site 1208658010135 catalytic site [active] 1208658010136 aminotransferase; Provisional; Region: PRK06105 1208658010137 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 1208658010138 inhibitor-cofactor binding pocket; inhibition site 1208658010139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658010140 catalytic residue [active] 1208658010141 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1208658010142 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1208658010143 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1208658010144 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 1208658010145 hypothetical protein; Validated; Region: PRK00110 1208658010146 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1208658010147 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1208658010148 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1208658010149 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1208658010150 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1208658010151 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1208658010152 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1208658010153 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1208658010154 active site 1208658010155 (T/H)XGH motif; other site 1208658010156 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1208658010157 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1208658010158 Maf-like protein; Region: Maf; pfam02545 1208658010159 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 1208658010160 active site 1208658010161 dimer interface [polypeptide binding]; other site 1208658010162 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1208658010163 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208658010164 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208658010165 ribonuclease G; Provisional; Region: PRK11712 1208658010166 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 1208658010167 homodimer interface [polypeptide binding]; other site 1208658010168 oligonucleotide binding site [chemical binding]; other site 1208658010169 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1208658010170 Prephenate dehydratase; Region: PDT; pfam00800 1208658010171 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658010172 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658010173 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 1208658010174 putative substrate translocation pore; other site 1208658010175 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1208658010176 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1208658010177 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658010178 Walker A/P-loop; other site 1208658010179 ATP binding site [chemical binding]; other site 1208658010180 Q-loop/lid; other site 1208658010181 ABC transporter signature motif; other site 1208658010182 Walker B; other site 1208658010183 D-loop; other site 1208658010184 H-loop/switch region; other site 1208658010185 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 1208658010186 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 1208658010187 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 1208658010188 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1208658010189 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 1208658010190 putative active site [active] 1208658010191 Flagellin N-methylase; Region: FliB; pfam03692 1208658010192 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 1208658010193 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1208658010194 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1208658010195 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 1208658010196 putative active site [active] 1208658010197 putative metal binding site [ion binding]; other site 1208658010198 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1208658010199 Sulfatase; Region: Sulfatase; cl17466 1208658010200 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208658010201 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 1208658010202 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1208658010203 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1208658010204 putative metal binding site; other site 1208658010205 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 1208658010206 putative active site [active] 1208658010207 putative metal binding site [ion binding]; other site 1208658010208 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 1208658010209 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208658010210 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1208658010211 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1208658010212 putative active site [active] 1208658010213 putative PHP Thumb interface [polypeptide binding]; other site 1208658010214 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 1208658010215 generic binding surface I; other site 1208658010216 generic binding surface II; other site 1208658010217 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1208658010218 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1208658010219 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 1208658010220 ATP binding site [chemical binding]; other site 1208658010221 putative Mg++ binding site [ion binding]; other site 1208658010222 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 1208658010223 nucleotide binding region [chemical binding]; other site 1208658010224 ATP-binding site [chemical binding]; other site 1208658010225 Helicase associated domain (HA2); Region: HA2; pfam04408 1208658010226 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1208658010227 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1208658010228 N-acetylglutamate synthase; Validated; Region: PRK05279 1208658010229 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 1208658010230 putative feedback inhibition sensing region; other site 1208658010231 putative nucleotide binding site [chemical binding]; other site 1208658010232 putative substrate binding site [chemical binding]; other site 1208658010233 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208658010234 Coenzyme A binding pocket [chemical binding]; other site 1208658010235 oxidative damage protection protein; Provisional; Region: PRK05408 1208658010236 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1208658010237 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1208658010238 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1208658010239 transcriptional regulator PhoU; Provisional; Region: PRK11115 1208658010240 PhoU domain; Region: PhoU; pfam01895 1208658010241 PhoU domain; Region: PhoU; pfam01895 1208658010242 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 1208658010243 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1208658010244 active site 1208658010245 dimer interface [polypeptide binding]; other site 1208658010246 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1208658010247 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658010248 active site 1208658010249 RmuC family; Region: RmuC; pfam02646 1208658010250 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; pfam10707 1208658010251 3-methyladenine DNA glycosylase; Reviewed; Region: PRK00802 1208658010252 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 1208658010253 ArsC family; Region: ArsC; pfam03960 1208658010254 putative catalytic residues [active] 1208658010255 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1208658010256 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658010257 dimer interface [polypeptide binding]; other site 1208658010258 conserved gate region; other site 1208658010259 putative PBP binding loops; other site 1208658010260 ABC-ATPase subunit interface; other site 1208658010261 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658010262 dimer interface [polypeptide binding]; other site 1208658010263 conserved gate region; other site 1208658010264 putative PBP binding loops; other site 1208658010265 ABC-ATPase subunit interface; other site 1208658010266 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1208658010267 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658010268 Walker A/P-loop; other site 1208658010269 ATP binding site [chemical binding]; other site 1208658010270 Q-loop/lid; other site 1208658010271 ABC transporter signature motif; other site 1208658010272 Walker B; other site 1208658010273 D-loop; other site 1208658010274 H-loop/switch region; other site 1208658010275 TOBE domain; Region: TOBE_2; pfam08402 1208658010276 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1208658010277 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1208658010278 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1208658010279 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1208658010280 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 1208658010281 apolar tunnel; other site 1208658010282 heme binding site [chemical binding]; other site 1208658010283 dimerization interface [polypeptide binding]; other site 1208658010284 FtsX-like permease family; Region: FtsX; pfam02687 1208658010285 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208658010286 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1208658010287 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208658010288 DctM-like transporters; Region: DctM; pfam06808 1208658010289 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208658010290 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1208658010291 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1208658010292 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1208658010293 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1208658010294 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 1208658010295 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1208658010296 active site 1208658010297 AMP binding site [chemical binding]; other site 1208658010298 homodimer interface [polypeptide binding]; other site 1208658010299 acyl-activating enzyme (AAE) consensus motif; other site 1208658010300 CoA binding site [chemical binding]; other site 1208658010301 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 1208658010302 CoenzymeA binding site [chemical binding]; other site 1208658010303 subunit interaction site [polypeptide binding]; other site 1208658010304 PHB binding site; other site 1208658010305 enoyl-CoA hydratase; Provisional; Region: PRK08140 1208658010306 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 1208658010307 substrate binding site [chemical binding]; other site 1208658010308 oxyanion hole (OAH) forming residues; other site 1208658010309 trimer interface [polypeptide binding]; other site 1208658010310 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 1208658010311 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 1208658010312 Phenylacetic acid degradation proteins PaaZ (Escherichia coli) and PaaN (Pseudomonas putida)-like; Region: ALDH_PAD-PaaZ; cd07127 1208658010313 NADP binding site [chemical binding]; other site 1208658010314 catalytic residues [active] 1208658010315 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1208658010316 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 1208658010317 FAD binding pocket [chemical binding]; other site 1208658010318 FAD binding motif [chemical binding]; other site 1208658010319 phosphate binding motif [ion binding]; other site 1208658010320 beta-alpha-beta structure motif; other site 1208658010321 NAD(p) ribose binding residues [chemical binding]; other site 1208658010322 NAD binding pocket [chemical binding]; other site 1208658010323 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1208658010324 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 1208658010325 catalytic loop [active] 1208658010326 iron binding site [ion binding]; other site 1208658010327 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1208658010328 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1208658010329 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1208658010330 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1208658010331 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1208658010332 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1208658010333 PaaX-like protein; Region: PaaX; pfam07848 1208658010334 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 1208658010335 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1208658010336 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1208658010337 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1208658010338 catalytic site [active] 1208658010339 putative active site [active] 1208658010340 putative substrate binding site [chemical binding]; other site 1208658010341 dimer interface [polypeptide binding]; other site 1208658010342 Peptidase family M48; Region: Peptidase_M48; pfam01435 1208658010343 GTPase RsgA; Reviewed; Region: PRK00098 1208658010344 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 1208658010345 RNA binding site [nucleotide binding]; other site 1208658010346 homodimer interface [polypeptide binding]; other site 1208658010347 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1208658010348 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1208658010349 GTP/Mg2+ binding site [chemical binding]; other site 1208658010350 G4 box; other site 1208658010351 G5 box; other site 1208658010352 G1 box; other site 1208658010353 Switch I region; other site 1208658010354 G2 box; other site 1208658010355 G3 box; other site 1208658010356 Switch II region; other site 1208658010357 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 1208658010358 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1208658010359 active site 1208658010360 catalytic tetrad [active] 1208658010361 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 1208658010362 putative active site [active] 1208658010363 putative CoA binding site [chemical binding]; other site 1208658010364 nudix motif; other site 1208658010365 metal binding site [ion binding]; metal-binding site 1208658010366 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1208658010367 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1208658010368 EamA-like transporter family; Region: EamA; cl17759 1208658010369 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1208658010370 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 1208658010371 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1208658010372 CysD dimerization site [polypeptide binding]; other site 1208658010373 G1 box; other site 1208658010374 putative GEF interaction site [polypeptide binding]; other site 1208658010375 GTP/Mg2+ binding site [chemical binding]; other site 1208658010376 Switch I region; other site 1208658010377 G2 box; other site 1208658010378 G3 box; other site 1208658010379 Switch II region; other site 1208658010380 G4 box; other site 1208658010381 G5 box; other site 1208658010382 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 1208658010383 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 1208658010384 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1208658010385 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1208658010386 Active Sites [active] 1208658010387 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1208658010388 Active Sites [active] 1208658010389 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1208658010390 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1208658010391 Walker A/P-loop; other site 1208658010392 ATP binding site [chemical binding]; other site 1208658010393 Q-loop/lid; other site 1208658010394 ABC transporter signature motif; other site 1208658010395 Walker B; other site 1208658010396 D-loop; other site 1208658010397 H-loop/switch region; other site 1208658010398 TOBE-like domain; Region: TOBE_3; pfam12857 1208658010399 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1208658010400 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658010401 dimer interface [polypeptide binding]; other site 1208658010402 conserved gate region; other site 1208658010403 putative PBP binding loops; other site 1208658010404 ABC-ATPase subunit interface; other site 1208658010405 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1208658010406 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658010407 dimer interface [polypeptide binding]; other site 1208658010408 conserved gate region; other site 1208658010409 putative PBP binding loops; other site 1208658010410 ABC-ATPase subunit interface; other site 1208658010411 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1208658010412 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1208658010413 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1208658010414 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 1208658010415 dimer interface [polypeptide binding]; other site 1208658010416 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1208658010417 catalytic triad [active] 1208658010418 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1208658010419 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1208658010420 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658010421 active site 1208658010422 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1208658010423 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1208658010424 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 1208658010425 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1208658010426 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 1208658010427 Ligand binding site [chemical binding]; other site 1208658010428 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1208658010429 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1208658010430 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1208658010431 putative active site [active] 1208658010432 Zn binding site [ion binding]; other site 1208658010433 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1208658010434 NIL domain; Region: NIL; cl09633 1208658010435 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 1208658010436 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1208658010437 cysteine synthase B; Region: cysM; TIGR01138 1208658010438 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 1208658010439 dimer interface [polypeptide binding]; other site 1208658010440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658010441 catalytic residue [active] 1208658010442 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1208658010443 Helix-hairpin-helix motif; Region: HHH; pfam00633 1208658010444 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1208658010445 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1208658010446 NADP binding site [chemical binding]; other site 1208658010447 homopentamer interface [polypeptide binding]; other site 1208658010448 substrate binding site [chemical binding]; other site 1208658010449 active site 1208658010450 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 1208658010451 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 1208658010452 putative ribose interaction site [chemical binding]; other site 1208658010453 putative ADP binding site [chemical binding]; other site 1208658010454 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1208658010455 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 1208658010456 binding surface 1208658010457 TPR motif; other site 1208658010458 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 1208658010459 IHF - DNA interface [nucleotide binding]; other site 1208658010460 IHF dimer interface [polypeptide binding]; other site 1208658010461 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1208658010462 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 1208658010463 RNA binding site [nucleotide binding]; other site 1208658010464 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 1208658010465 RNA binding site [nucleotide binding]; other site 1208658010466 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 1208658010467 RNA binding site [nucleotide binding]; other site 1208658010468 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 1208658010469 RNA binding site [nucleotide binding]; other site 1208658010470 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 1208658010471 RNA binding site [nucleotide binding]; other site 1208658010472 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 1208658010473 RNA binding site [nucleotide binding]; other site 1208658010474 cytidylate kinase; Provisional; Region: cmk; PRK00023 1208658010475 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 1208658010476 CMP-binding site; other site 1208658010477 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1208658010478 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 1208658010479 hinge; other site 1208658010480 active site 1208658010481 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 1208658010482 prephenate dehydrogenase; Validated; Region: PRK08507 1208658010483 Chorismate mutase type II; Region: CM_2; cl00693 1208658010484 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1208658010485 Prephenate dehydratase; Region: PDT; pfam00800 1208658010486 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 1208658010487 putative L-Phe binding site [chemical binding]; other site 1208658010488 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 1208658010489 homodimer interface [polypeptide binding]; other site 1208658010490 substrate-cofactor binding pocket; other site 1208658010491 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658010492 catalytic residue [active] 1208658010493 DNA gyrase subunit A; Validated; Region: PRK05560 1208658010494 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 1208658010495 CAP-like domain; other site 1208658010496 active site 1208658010497 primary dimer interface [polypeptide binding]; other site 1208658010498 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208658010499 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208658010500 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208658010501 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208658010502 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208658010503 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208658010504 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1208658010505 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1208658010506 ligand binding site [chemical binding]; other site 1208658010507 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1208658010508 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1208658010509 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 1208658010510 S-adenosylmethionine binding site [chemical binding]; other site 1208658010511 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1208658010512 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 1208658010513 motif II; other site 1208658010514 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1208658010515 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 1208658010516 putative substrate translocation pore; other site 1208658010517 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1208658010518 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1208658010519 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658010520 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658010521 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 1208658010522 dimerization interface [polypeptide binding]; other site 1208658010523 substrate binding pocket [chemical binding]; other site 1208658010524 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658010525 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 1208658010526 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1208658010527 active site 1208658010528 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1208658010529 DUF35 OB-fold domain; Region: DUF35; pfam01796 1208658010530 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208658010531 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 1208658010532 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 1208658010533 acyl-activating enzyme (AAE) consensus motif; other site 1208658010534 putative AMP binding site [chemical binding]; other site 1208658010535 putative active site [active] 1208658010536 putative CoA binding site [chemical binding]; other site 1208658010537 Restriction endonuclease; Region: Mrr_cat; pfam04471 1208658010538 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658010539 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658010540 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 1208658010541 dimerization interface [polypeptide binding]; other site 1208658010542 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658010543 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1208658010544 active site 1208658010545 iron coordination sites [ion binding]; other site 1208658010546 substrate binding pocket [chemical binding]; other site 1208658010547 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 1208658010548 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1208658010549 Predicted transcriptional regulators [Transcription]; Region: COG1378 1208658010550 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 1208658010551 dimerization interface [polypeptide binding]; other site 1208658010552 putative Zn2+ binding site [ion binding]; other site 1208658010553 putative DNA binding site [nucleotide binding]; other site 1208658010554 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 1208658010555 C-terminal domain interface [polypeptide binding]; other site 1208658010556 sugar binding site [chemical binding]; other site 1208658010557 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 1208658010558 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 1208658010559 tricarballylate utilization protein B; Provisional; Region: PRK15033 1208658010560 tricarballylate dehydrogenase; Validated; Region: PRK08274 1208658010561 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1208658010562 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 1208658010563 NAD(P) binding site [chemical binding]; other site 1208658010564 catalytic residues [active] 1208658010565 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1208658010566 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208658010567 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208658010568 Walker A/P-loop; other site 1208658010569 ATP binding site [chemical binding]; other site 1208658010570 Q-loop/lid; other site 1208658010571 ABC transporter signature motif; other site 1208658010572 Walker B; other site 1208658010573 D-loop; other site 1208658010574 H-loop/switch region; other site 1208658010575 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208658010576 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658010577 dimer interface [polypeptide binding]; other site 1208658010578 conserved gate region; other site 1208658010579 putative PBP binding loops; other site 1208658010580 ABC-ATPase subunit interface; other site 1208658010581 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208658010582 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658010583 dimer interface [polypeptide binding]; other site 1208658010584 conserved gate region; other site 1208658010585 putative PBP binding loops; other site 1208658010586 ABC-ATPase subunit interface; other site 1208658010587 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1208658010588 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 1208658010589 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658010590 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658010591 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 1208658010592 dimerization interface [polypeptide binding]; other site 1208658010593 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208658010594 PYR/PP interface [polypeptide binding]; other site 1208658010595 dimer interface [polypeptide binding]; other site 1208658010596 TPP binding site [chemical binding]; other site 1208658010597 hypothetical protein; Provisional; Region: PRK06163 1208658010598 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 1208658010599 TPP-binding site [chemical binding]; other site 1208658010600 aspartate aminotransferase; Provisional; Region: PRK05764 1208658010601 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 1208658010602 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658010603 homodimer interface [polypeptide binding]; other site 1208658010604 catalytic residue [active] 1208658010605 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1208658010606 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1208658010607 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1208658010608 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1208658010609 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658010610 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 1208658010611 dimer interface [polypeptide binding]; other site 1208658010612 FMN binding site [chemical binding]; other site 1208658010613 NADPH bind site [chemical binding]; other site 1208658010614 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 1208658010615 putative substrate translocation pore; other site 1208658010616 Cache domain; Region: Cache_1; pfam02743 1208658010617 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208658010618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208658010619 metal binding site [ion binding]; metal-binding site 1208658010620 active site 1208658010621 I-site; other site 1208658010622 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 1208658010623 Ligand Binding Site [chemical binding]; other site 1208658010624 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 1208658010625 Ligand Binding Site [chemical binding]; other site 1208658010626 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 1208658010627 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1208658010628 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 1208658010629 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1208658010630 catalytic residue [active] 1208658010631 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1208658010632 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1208658010633 dinuclear metal binding motif [ion binding]; other site 1208658010634 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1208658010635 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1208658010636 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 1208658010637 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1208658010638 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1208658010639 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658010640 Walker A/P-loop; other site 1208658010641 ATP binding site [chemical binding]; other site 1208658010642 Q-loop/lid; other site 1208658010643 ABC transporter signature motif; other site 1208658010644 Walker B; other site 1208658010645 D-loop; other site 1208658010646 H-loop/switch region; other site 1208658010647 cyanophycin synthetase; Region: cya_phycin_syn; TIGR02068 1208658010648 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1208658010649 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208658010650 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208658010651 cyanophycin synthetase; Region: cya_phycin_syn; TIGR02068 1208658010652 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208658010653 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208658010654 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208658010655 CsbD-like; Region: CsbD; cl17424 1208658010656 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1208658010657 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1208658010658 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1208658010659 Iron permease FTR1 family; Region: FTR1; cl00475 1208658010660 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1208658010661 Fe2+ transport protein; Region: Iron_transport; pfam10634 1208658010662 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 1208658010663 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 1208658010664 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1208658010665 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1208658010666 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 1208658010667 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1208658010668 NAD(P) binding site [chemical binding]; other site 1208658010669 homotetramer interface [polypeptide binding]; other site 1208658010670 homodimer interface [polypeptide binding]; other site 1208658010671 active site 1208658010672 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1208658010673 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1208658010674 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1208658010675 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1208658010676 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1208658010677 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 1208658010678 RNA binding surface [nucleotide binding]; other site 1208658010679 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1208658010680 active site 1208658010681 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1208658010682 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1208658010683 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 1208658010684 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1208658010685 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1208658010686 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1208658010687 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1208658010688 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 1208658010689 RNA binding site [nucleotide binding]; other site 1208658010690 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 1208658010691 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1208658010692 active site 1208658010693 HIGH motif; other site 1208658010694 dimer interface [polypeptide binding]; other site 1208658010695 KMSKS motif; other site 1208658010696 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 1208658010697 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1208658010698 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1208658010699 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1208658010700 Secretin and TonB N terminus short domain; Region: STN; smart00965 1208658010701 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1208658010702 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 1208658010703 N-terminal plug; other site 1208658010704 ligand-binding site [chemical binding]; other site 1208658010705 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1208658010706 FecR protein; Region: FecR; pfam04773 1208658010707 RNA polymerase sigma factor; Provisional; Region: PRK12528 1208658010708 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208658010709 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 1208658010710 DNA binding residues [nucleotide binding] 1208658010711 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1208658010712 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1208658010713 active site 1208658010714 iron coordination sites [ion binding]; other site 1208658010715 substrate binding pocket [chemical binding]; other site 1208658010716 short chain dehydrogenase; Provisional; Region: PRK07577 1208658010717 classical (c) SDRs; Region: SDR_c; cd05233 1208658010718 NAD(P) binding site [chemical binding]; other site 1208658010719 active site 1208658010720 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658010721 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1208658010722 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658010723 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 1208658010724 dimerization interface [polypeptide binding]; other site 1208658010725 substrate binding pocket [chemical binding]; other site 1208658010726 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208658010727 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658010728 NAD(P) binding site [chemical binding]; other site 1208658010729 active site 1208658010730 Predicted ATPase [General function prediction only]; Region: COG1485 1208658010731 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658010732 Walker B; other site 1208658010733 D-loop; other site 1208658010734 H-loop/switch region; other site 1208658010735 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1208658010736 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208658010737 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1208658010738 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1208658010739 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 1208658010740 E3 interaction surface; other site 1208658010741 lipoyl attachment site [posttranslational modification]; other site 1208658010742 e3 binding domain; Region: E3_binding; pfam02817 1208658010743 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1208658010744 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1208658010745 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 1208658010746 TPP-binding site [chemical binding]; other site 1208658010747 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1208658010748 Predicted membrane protein [Function unknown]; Region: COG1297 1208658010749 putative oligopeptide transporter, OPT family; Region: TIGR00733 1208658010751 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 1208658010752 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 1208658010753 dimer interface [polypeptide binding]; other site 1208658010754 TPP-binding site [chemical binding]; other site 1208658010755 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 1208658010756 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1208658010757 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1208658010758 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1208658010759 putative NAD(P) binding site [chemical binding]; other site 1208658010760 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1208658010761 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1208658010762 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 1208658010764 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 1208658010765 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1208658010766 dimer interface [polypeptide binding]; other site 1208658010767 active site 1208658010768 citrylCoA binding site [chemical binding]; other site 1208658010769 NADH binding [chemical binding]; other site 1208658010770 cationic pore residues; other site 1208658010771 oxalacetate/citrate binding site [chemical binding]; other site 1208658010772 coenzyme A binding site [chemical binding]; other site 1208658010773 catalytic triad [active] 1208658010774 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 1208658010775 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1208658010776 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1208658010777 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 1208658010778 L-aspartate oxidase; Provisional; Region: PRK06175 1208658010779 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1208658010780 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 1208658010781 SdhC subunit interface [polypeptide binding]; other site 1208658010782 proximal heme binding site [chemical binding]; other site 1208658010783 cardiolipin binding site; other site 1208658010784 Iron-sulfur protein interface; other site 1208658010785 proximal quinone binding site [chemical binding]; other site 1208658010786 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 1208658010787 Iron-sulfur protein interface; other site 1208658010788 proximal quinone binding site [chemical binding]; other site 1208658010789 SdhD (CybS) interface [polypeptide binding]; other site 1208658010790 proximal heme binding site [chemical binding]; other site 1208658010791 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208658010792 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658010793 DNA-binding site [nucleotide binding]; DNA binding site 1208658010794 UTRA domain; Region: UTRA; pfam07702 1208658010795 malate dehydrogenase; Provisional; Region: PRK05442 1208658010796 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 1208658010797 NAD(P) binding site [chemical binding]; other site 1208658010798 dimer interface [polypeptide binding]; other site 1208658010799 malate binding site [chemical binding]; other site 1208658010800 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1208658010801 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 1208658010802 tetramer interface [polypeptide binding]; other site 1208658010803 active site 1208658010804 Mg2+/Mn2+ binding site [ion binding]; other site 1208658010805 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1208658010806 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 1208658010807 dimer interface [polypeptide binding]; other site 1208658010808 active site 1208658010809 citrylCoA binding site [chemical binding]; other site 1208658010810 oxalacetate/citrate binding site [chemical binding]; other site 1208658010811 coenzyme A binding site [chemical binding]; other site 1208658010812 catalytic triad [active] 1208658010813 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1208658010814 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1208658010815 substrate binding site [chemical binding]; other site 1208658010816 ligand binding site [chemical binding]; other site 1208658010817 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 1208658010818 substrate binding site [chemical binding]; other site 1208658010819 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1208658010820 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1208658010821 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1208658010822 Predicted membrane protein [Function unknown]; Region: COG1981 1208658010823 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1208658010824 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1208658010825 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 1208658010826 S-adenosylmethionine binding site [chemical binding]; other site 1208658010827 RDD family; Region: RDD; pfam06271 1208658010828 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1208658010829 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1208658010830 putative active site [active] 1208658010831 putative metal binding site [ion binding]; other site 1208658010832 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1208658010833 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 1208658010834 active site 1208658010835 acyl-activating enzyme (AAE) consensus motif; other site 1208658010836 putative CoA binding site [chemical binding]; other site 1208658010837 AMP binding site [chemical binding]; other site 1208658010838 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1208658010839 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 1208658010840 trimer interface [polypeptide binding]; other site 1208658010841 putative metal binding site [ion binding]; other site 1208658010842 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1208658010843 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 1208658010844 dimerization interface [polypeptide binding]; other site 1208658010845 domain crossover interface; other site 1208658010846 redox-dependent activation switch; other site 1208658010847 Cupin domain; Region: Cupin_2; pfam07883 1208658010848 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1208658010849 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1208658010850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658010851 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1208658010852 NAD(P) binding site [chemical binding]; other site 1208658010853 active site 1208658010854 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208658010855 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 1208658010856 DNA binding site [nucleotide binding] 1208658010857 Predicted integral membrane protein [Function unknown]; Region: COG5616 1208658010858 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1208658010859 TPR motif; other site 1208658010860 binding surface 1208658010861 TPR repeat; Region: TPR_11; pfam13414 1208658010862 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 1208658010863 TPR motif; other site 1208658010864 TPR repeat; Region: TPR_11; pfam13414 1208658010865 binding surface 1208658010866 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1208658010867 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1208658010868 enolase; Provisional; Region: eno; PRK00077 1208658010869 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 1208658010870 dimer interface [polypeptide binding]; other site 1208658010871 metal binding site [ion binding]; metal-binding site 1208658010872 substrate binding pocket [chemical binding]; other site 1208658010873 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1208658010874 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1208658010875 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1208658010876 CTP synthetase; Validated; Region: pyrG; PRK05380 1208658010877 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 1208658010878 Catalytic site [active] 1208658010879 active site 1208658010880 UTP binding site [chemical binding]; other site 1208658010881 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1208658010882 active site 1208658010883 putative oxyanion hole; other site 1208658010884 catalytic triad [active] 1208658010885 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1208658010886 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1208658010887 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1208658010888 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 1208658010889 active site 1208658010890 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 1208658010891 SxDxEG motif; other site 1208658010892 active site 1208658010893 metal binding site [ion binding]; metal-binding site 1208658010894 homopentamer interface [polypeptide binding]; other site 1208658010895 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 1208658010896 homodimer interface [polypeptide binding]; other site 1208658010897 homotetramer interface [polypeptide binding]; other site 1208658010898 active site pocket [active] 1208658010899 cleavage site 1208658010900 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 1208658010901 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1208658010902 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658010903 dimer interface [polypeptide binding]; other site 1208658010904 conserved gate region; other site 1208658010905 putative PBP binding loops; other site 1208658010906 ABC-ATPase subunit interface; other site 1208658010907 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 1208658010908 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658010909 dimer interface [polypeptide binding]; other site 1208658010910 conserved gate region; other site 1208658010911 putative PBP binding loops; other site 1208658010912 ABC-ATPase subunit interface; other site 1208658010913 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 1208658010914 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 1208658010915 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 1208658010916 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658010917 Walker A/P-loop; other site 1208658010918 ATP binding site [chemical binding]; other site 1208658010919 Q-loop/lid; other site 1208658010920 ABC transporter signature motif; other site 1208658010921 Walker B; other site 1208658010922 D-loop; other site 1208658010923 H-loop/switch region; other site 1208658010924 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658010925 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658010926 Walker A/P-loop; other site 1208658010927 ATP binding site [chemical binding]; other site 1208658010928 Q-loop/lid; other site 1208658010929 ABC transporter signature motif; other site 1208658010930 Walker B; other site 1208658010931 D-loop; other site 1208658010932 H-loop/switch region; other site 1208658010933 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1208658010934 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 1208658010935 catalytic nucleophile [active] 1208658010936 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1208658010937 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1208658010938 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 1208658010939 putative active site [active] 1208658010940 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1208658010941 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1208658010942 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 1208658010943 active site 1208658010944 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1208658010945 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1208658010946 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1208658010947 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658010948 NAD(P) binding site [chemical binding]; other site 1208658010949 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1208658010950 active site 1208658010951 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1208658010952 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1208658010953 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 1208658010954 tetramer interface [polypeptide binding]; other site 1208658010955 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658010956 catalytic residue [active] 1208658010957 EamA-like transporter family; Region: EamA; pfam00892 1208658010958 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1208658010959 EamA-like transporter family; Region: EamA; pfam00892 1208658010960 acetyl-CoA synthetase; Provisional; Region: PRK00174 1208658010961 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1208658010962 active site 1208658010963 CoA binding site [chemical binding]; other site 1208658010964 acyl-activating enzyme (AAE) consensus motif; other site 1208658010965 AMP binding site [chemical binding]; other site 1208658010966 acetate binding site [chemical binding]; other site 1208658010967 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 1208658010968 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 1208658010969 putative substrate translocation pore; other site 1208658010970 Domain of unknown function (DUF336); Region: DUF336; cl01249 1208658010971 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1208658010972 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658010973 acyl-activating enzyme (AAE) consensus motif; other site 1208658010974 AMP binding site [chemical binding]; other site 1208658010975 active site 1208658010976 CoA binding site [chemical binding]; other site 1208658010977 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1208658010978 NlpC/P60 family; Region: NLPC_P60; pfam00877 1208658010979 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 1208658010980 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 1208658010981 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658010982 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1208658010983 substrate binding site [chemical binding]; other site 1208658010984 dimerization interface [polypeptide binding]; other site 1208658010985 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1208658010986 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1208658010987 tetrameric interface [polypeptide binding]; other site 1208658010988 NAD binding site [chemical binding]; other site 1208658010989 catalytic residues [active] 1208658010990 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208658010991 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 1208658010992 putative ligand binding site [chemical binding]; other site 1208658010993 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658010994 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658010995 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 1208658010996 dimerization interface [polypeptide binding]; other site 1208658010997 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1208658010998 Predicted permeases [General function prediction only]; Region: COG0795 1208658010999 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1208658011000 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 1208658011001 interface (dimer of trimers) [polypeptide binding]; other site 1208658011002 Substrate-binding/catalytic site; other site 1208658011003 Zn-binding sites [ion binding]; other site 1208658011004 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1208658011005 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1208658011006 YccA-like proteins; Region: YccA_like; cd10433 1208658011007 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658011008 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 1208658011009 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1208658011010 putative active site [active] 1208658011011 Zn binding site [ion binding]; other site 1208658011012 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 1208658011013 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1208658011014 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208658011015 catalytic residue [active] 1208658011016 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1208658011017 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658011018 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 1208658011019 dimerization interface [polypeptide binding]; other site 1208658011020 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1208658011021 Recombination protein O N terminal; Region: RecO_N; pfam11967 1208658011022 Recombination protein O C terminal; Region: RecO_C; pfam02565 1208658011023 GTPase Era; Reviewed; Region: era; PRK00089 1208658011024 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1208658011025 G1 box; other site 1208658011026 GTP/Mg2+ binding site [chemical binding]; other site 1208658011027 Switch I region; other site 1208658011028 G2 box; other site 1208658011029 Switch II region; other site 1208658011030 G3 box; other site 1208658011031 G4 box; other site 1208658011032 G5 box; other site 1208658011033 KH domain; Region: KH_2; pfam07650 1208658011034 ribonuclease III; Reviewed; Region: rnc; PRK00102 1208658011035 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 1208658011036 dimerization interface [polypeptide binding]; other site 1208658011037 active site 1208658011038 metal binding site [ion binding]; metal-binding site 1208658011039 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 1208658011040 dsRNA binding site [nucleotide binding]; other site 1208658011041 signal peptidase I; Provisional; Region: PRK10861 1208658011042 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 1208658011043 Catalytic site [active] 1208658011044 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 1208658011045 GTP-binding protein LepA; Provisional; Region: PRK05433 1208658011046 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1208658011047 G1 box; other site 1208658011048 putative GEF interaction site [polypeptide binding]; other site 1208658011049 GTP/Mg2+ binding site [chemical binding]; other site 1208658011050 Switch I region; other site 1208658011051 G2 box; other site 1208658011052 G3 box; other site 1208658011053 Switch II region; other site 1208658011054 G4 box; other site 1208658011055 G5 box; other site 1208658011056 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 1208658011057 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 1208658011058 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1208658011059 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1208658011060 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1208658011061 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 1208658011062 protein binding site [polypeptide binding]; other site 1208658011063 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 1208658011064 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1208658011065 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1208658011066 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1208658011067 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 1208658011068 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208658011069 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 1208658011070 DNA binding residues [nucleotide binding] 1208658011071 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1208658011072 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 1208658011073 dimer interface [polypeptide binding]; other site 1208658011074 active site 1208658011075 acyl carrier protein; Provisional; Region: acpP; PRK00982 1208658011076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658011077 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1208658011078 NAD(P) binding site [chemical binding]; other site 1208658011079 active site 1208658011080 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1208658011081 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1208658011082 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1208658011083 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 1208658011084 dimer interface [polypeptide binding]; other site 1208658011085 active site 1208658011086 CoA binding pocket [chemical binding]; other site 1208658011087 putative phosphate acyltransferase; Provisional; Region: PRK05331 1208658011088 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1208658011089 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1208658011090 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 1208658011091 active site 1208658011092 dimer interface [polypeptide binding]; other site 1208658011093 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 1208658011094 putative SAM binding site [chemical binding]; other site 1208658011095 homodimer interface [polypeptide binding]; other site 1208658011096 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1208658011097 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 1208658011098 amidase catalytic site [active] 1208658011099 Zn binding residues [ion binding]; other site 1208658011100 substrate binding site [chemical binding]; other site 1208658011101 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1208658011102 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1208658011103 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1208658011104 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 1208658011105 Moco binding site; other site 1208658011106 metal coordination site [ion binding]; other site 1208658011107 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1208658011108 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 1208658011109 motif II; other site 1208658011110 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1208658011111 S4 domain; Region: S4; pfam01479 1208658011112 RNA binding surface [nucleotide binding]; other site 1208658011113 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1208658011114 active site 1208658011115 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1208658011116 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 1208658011117 homodimer interface [polypeptide binding]; other site 1208658011118 oligonucleotide binding site [chemical binding]; other site 1208658011119 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 1208658011120 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1208658011121 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1208658011122 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1208658011123 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1208658011124 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 1208658011125 substrate binding site [chemical binding]; other site 1208658011126 active site 1208658011127 catalytic residues [active] 1208658011128 heterodimer interface [polypeptide binding]; other site 1208658011129 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1208658011130 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 1208658011131 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658011132 catalytic residue [active] 1208658011133 acetylornithine deacetylase; Provisional; Region: PRK07522 1208658011134 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1208658011135 metal binding site [ion binding]; metal-binding site 1208658011136 putative dimer interface [polypeptide binding]; other site 1208658011137 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1208658011138 HD domain; Region: HD_4; pfam13328 1208658011139 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1208658011140 synthetase active site [active] 1208658011141 NTP binding site [chemical binding]; other site 1208658011142 metal binding site [ion binding]; metal-binding site 1208658011143 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 1208658011144 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1208658011145 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 1208658011146 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1208658011147 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 1208658011148 homotrimer interaction site [polypeptide binding]; other site 1208658011149 putative active site [active] 1208658011150 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1208658011151 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 1208658011152 active site 1208658011153 Ferredoxin [Energy production and conversion]; Region: COG1146 1208658011154 4Fe-4S binding domain; Region: Fer4; pfam00037 1208658011155 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1208658011156 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1208658011157 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 1208658011158 FAD binding pocket [chemical binding]; other site 1208658011159 FAD binding motif [chemical binding]; other site 1208658011160 phosphate binding motif [ion binding]; other site 1208658011161 beta-alpha-beta structure motif; other site 1208658011162 NAD binding pocket [chemical binding]; other site 1208658011163 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1208658011164 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1208658011165 ferredoxin; Provisional; Region: PRK08764 1208658011166 Putative Fe-S cluster; Region: FeS; cl17515 1208658011167 4Fe-4S binding domain; Region: Fer4; cl02805 1208658011168 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1208658011169 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1208658011170 minor groove reading motif; other site 1208658011171 helix-hairpin-helix signature motif; other site 1208658011172 substrate binding pocket [chemical binding]; other site 1208658011173 active site 1208658011174 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1208658011175 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658011176 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658011177 Walker A/P-loop; other site 1208658011178 ATP binding site [chemical binding]; other site 1208658011179 Q-loop/lid; other site 1208658011180 ABC transporter signature motif; other site 1208658011181 Walker B; other site 1208658011182 D-loop; other site 1208658011183 H-loop/switch region; other site 1208658011184 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658011185 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658011186 Walker A/P-loop; other site 1208658011187 ATP binding site [chemical binding]; other site 1208658011188 Q-loop/lid; other site 1208658011189 ABC transporter signature motif; other site 1208658011190 Walker B; other site 1208658011191 D-loop; other site 1208658011192 H-loop/switch region; other site 1208658011193 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208658011194 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 1208658011195 putative ligand binding site [chemical binding]; other site 1208658011196 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 1208658011197 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658011198 TM-ABC transporter signature motif; other site 1208658011199 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658011200 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 1208658011201 TM-ABC transporter signature motif; other site 1208658011202 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1208658011203 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1208658011204 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1208658011205 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 1208658011206 homodimer interface [polypeptide binding]; other site 1208658011207 substrate-cofactor binding pocket; other site 1208658011208 catalytic residue [active] 1208658011209 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658011210 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658011211 Walker A/P-loop; other site 1208658011212 ATP binding site [chemical binding]; other site 1208658011213 Q-loop/lid; other site 1208658011214 ABC transporter signature motif; other site 1208658011215 Walker B; other site 1208658011216 D-loop; other site 1208658011217 H-loop/switch region; other site 1208658011218 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658011219 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 1208658011220 TM-ABC transporter signature motif; other site 1208658011221 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658011222 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658011223 Walker A/P-loop; other site 1208658011224 ATP binding site [chemical binding]; other site 1208658011225 Q-loop/lid; other site 1208658011226 ABC transporter signature motif; other site 1208658011227 Walker B; other site 1208658011228 D-loop; other site 1208658011229 H-loop/switch region; other site 1208658011230 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 1208658011231 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658011232 TM-ABC transporter signature motif; other site 1208658011233 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208658011234 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 1208658011235 putative ligand binding site [chemical binding]; other site 1208658011236 BioY family; Region: BioY; pfam02632 1208658011237 Cobalt transport protein; Region: CbiQ; cl00463 1208658011238 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1208658011239 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1208658011240 Walker A/P-loop; other site 1208658011241 ATP binding site [chemical binding]; other site 1208658011242 Q-loop/lid; other site 1208658011243 ABC transporter signature motif; other site 1208658011244 Walker B; other site 1208658011245 D-loop; other site 1208658011246 H-loop/switch region; other site 1208658011247 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1208658011248 SelR domain; Region: SelR; pfam01641 1208658011249 intracellular septation protein A; Reviewed; Region: PRK00259 1208658011250 BolA-like protein; Region: BolA; pfam01722 1208658011251 SurA N-terminal domain; Region: SurA_N_3; cl07813 1208658011252 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 1208658011253 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1208658011254 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1208658011255 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 1208658011256 nucleotide binding pocket [chemical binding]; other site 1208658011257 K-X-D-G motif; other site 1208658011258 catalytic site [active] 1208658011259 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1208658011260 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1208658011261 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 1208658011262 Dimer interface [polypeptide binding]; other site 1208658011263 BRCT sequence motif; other site 1208658011264 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 1208658011265 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1208658011266 AAA domain; Region: AAA_23; pfam13476 1208658011267 Walker A/P-loop; other site 1208658011268 ATP binding site [chemical binding]; other site 1208658011269 Q-loop/lid; other site 1208658011270 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1208658011271 ABC transporter signature motif; other site 1208658011272 Walker B; other site 1208658011273 D-loop; other site 1208658011274 H-loop/switch region; other site 1208658011275 lysophospholipid transporter LplT; Provisional; Region: PRK11195 1208658011276 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 1208658011277 putative substrate translocation pore; other site 1208658011278 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1208658011279 Fe-S cluster binding site [ion binding]; other site 1208658011280 active site 1208658011281 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1208658011282 Glycoprotease family; Region: Peptidase_M22; pfam00814 1208658011283 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1208658011284 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208658011285 Coenzyme A binding pocket [chemical binding]; other site 1208658011286 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1208658011287 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 1208658011288 active site 1208658011289 phosphorylation site [posttranslational modification] 1208658011290 intermolecular recognition site; other site 1208658011291 dimerization interface [polypeptide binding]; other site 1208658011292 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 1208658011293 DNA binding site [nucleotide binding] 1208658011294 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 1208658011295 dimerization interface [polypeptide binding]; other site 1208658011296 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 1208658011297 dimer interface [polypeptide binding]; other site 1208658011298 phosphorylation site [posttranslational modification] 1208658011299 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 1208658011300 ATP binding site [chemical binding]; other site 1208658011301 Mg2+ binding site [ion binding]; other site 1208658011302 G-X-G motif; other site 1208658011303 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1208658011304 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 1208658011305 dimer interface [polypeptide binding]; other site 1208658011306 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1208658011307 catalytic triad [active] 1208658011308 peroxidatic and resolving cysteines [active] 1208658011309 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 1208658011310 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1208658011311 Helix-turn-helix domain; Region: HTH_18; pfam12833 1208658011312 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208658011313 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 1208658011314 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1208658011315 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 1208658011316 homotrimer interaction site [polypeptide binding]; other site 1208658011317 zinc binding site [ion binding]; other site 1208658011318 CDP-binding sites; other site 1208658011319 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1208658011320 substrate binding site; other site 1208658011321 dimer interface; other site 1208658011322 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1208658011323 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1208658011324 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 1208658011325 ATP binding site [chemical binding]; other site 1208658011326 putative Mg++ binding site [ion binding]; other site 1208658011327 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 1208658011328 nucleotide binding region [chemical binding]; other site 1208658011329 ATP-binding site [chemical binding]; other site 1208658011330 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1208658011331 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1208658011332 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 1208658011333 motif II; other site 1208658011334 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658011335 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658011336 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1208658011337 putative dimerization interface [polypeptide binding]; other site 1208658011338 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658011339 acetolactate synthase catalytic subunit; Validated; Region: PRK06112 1208658011340 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208658011341 PYR/PP interface [polypeptide binding]; other site 1208658011342 dimer interface [polypeptide binding]; other site 1208658011343 TPP binding site [chemical binding]; other site 1208658011344 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208658011345 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 1208658011346 TPP-binding site [chemical binding]; other site 1208658011347 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 1208658011348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658011349 NAD(P) binding site [chemical binding]; other site 1208658011350 active site 1208658011351 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1208658011352 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1208658011353 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1208658011354 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 1208658011355 N-terminal plug; other site 1208658011356 ligand-binding site [chemical binding]; other site 1208658011357 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1208658011358 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 1208658011359 N-terminal plug; other site 1208658011360 ligand-binding site [chemical binding]; other site 1208658011361 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 1208658011362 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1208658011363 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1208658011364 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1208658011365 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1208658011366 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1208658011367 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1208658011368 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1208658011369 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1208658011370 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1208658011371 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1208658011372 4Fe-4S binding domain; Region: Fer4; pfam00037 1208658011373 4Fe-4S binding domain; Region: Fer4; cl02805 1208658011374 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1208658011375 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1208658011376 NADH dehydrogenase subunit G; Validated; Region: PRK09129 1208658011377 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 1208658011378 catalytic loop [active] 1208658011379 iron binding site [ion binding]; other site 1208658011380 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1208658011381 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 1208658011382 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1208658011383 SLBB domain; Region: SLBB; pfam10531 1208658011384 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1208658011385 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1208658011386 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 1208658011387 putative dimer interface [polypeptide binding]; other site 1208658011388 [2Fe-2S] cluster binding site [ion binding]; other site 1208658011389 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1208658011390 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1208658011391 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1208658011392 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1208658011393 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1208658011394 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1208658011395 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1208658011396 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 1208658011397 trimer interface [polypeptide binding]; other site 1208658011398 eyelet of channel; other site 1208658011399 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658011400 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658011401 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 1208658011402 CoenzymeA binding site [chemical binding]; other site 1208658011403 subunit interaction site [polypeptide binding]; other site 1208658011404 PHB binding site; other site 1208658011405 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 1208658011406 active site 1208658011407 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1208658011408 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1208658011409 active site 1208658011410 metal binding site [ion binding]; metal-binding site 1208658011411 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1208658011412 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1208658011413 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658011414 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658011415 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1208658011416 dimerization interface [polypeptide binding]; other site 1208658011417 BCCT family transporter; Region: BCCT; cl00569 1208658011418 Predicted transcriptional regulators [Transcription]; Region: COG1733 1208658011419 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1208658011420 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1208658011421 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208658011422 multidrug efflux protein; Reviewed; Region: PRK09579 1208658011423 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1208658011424 Predicted transcriptional regulator [Transcription]; Region: COG2345 1208658011425 MarR family; Region: MarR_2; cl17246 1208658011426 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1208658011427 azurin; Region: azurin; TIGR02695 1208658011428 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658011429 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1208658011430 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1208658011431 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1208658011432 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1208658011433 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1208658011434 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1208658011435 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208658011436 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658011437 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 1208658011438 active site residue [active] 1208658011439 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 1208658011440 active site residue [active] 1208658011441 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 1208658011442 active site residue [active] 1208658011443 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 1208658011444 active site residue [active] 1208658011446 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1208658011447 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1208658011448 active site 1208658011449 Zn binding site [ion binding]; other site 1208658011450 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1208658011451 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 1208658011452 homodimer interface [polypeptide binding]; other site 1208658011453 substrate-cofactor binding pocket; other site 1208658011454 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658011455 catalytic residue [active] 1208658011456 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 1208658011457 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658011458 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 1208658011459 putative dimerization interface [polypeptide binding]; other site 1208658011460 short chain dehydrogenase; Provisional; Region: PRK08339 1208658011461 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1208658011462 putative NAD(P) binding site [chemical binding]; other site 1208658011463 putative active site [active] 1208658011464 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658011465 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 1208658011466 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1208658011467 active sites [active] 1208658011468 tetramer interface [polypeptide binding]; other site 1208658011469 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1208658011470 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658011471 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 1208658011472 dimer interface [polypeptide binding]; other site 1208658011473 Methylaspartate ammonia-lyase C-terminus; Region: MAAL_C; pfam07476 1208658011474 active site 1208658011475 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658011476 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208658011477 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658011478 BCCT family transporter; Region: BCCT; cl00569 1208658011479 Preprotein translocase SecG subunit; Region: SecG; cl09123 1208658011480 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 1208658011481 triosephosphate isomerase; Provisional; Region: PRK14567 1208658011482 substrate binding site [chemical binding]; other site 1208658011483 dimer interface [polypeptide binding]; other site 1208658011484 catalytic triad [active] 1208658011485 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1208658011486 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1208658011487 NAD(P) binding site [chemical binding]; other site 1208658011488 PIN domain; Region: PIN_3; pfam13470 1208658011489 threonine dehydratase; Provisional; Region: PRK07334 1208658011490 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 1208658011491 tetramer interface [polypeptide binding]; other site 1208658011492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658011493 catalytic residue [active] 1208658011494 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 1208658011495 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1208658011496 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1208658011497 RNase E interface [polypeptide binding]; other site 1208658011498 trimer interface [polypeptide binding]; other site 1208658011499 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1208658011500 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1208658011501 RNase E interface [polypeptide binding]; other site 1208658011502 trimer interface [polypeptide binding]; other site 1208658011503 active site 1208658011504 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 1208658011505 putative nucleic acid binding region [nucleotide binding]; other site 1208658011506 G-X-X-G motif; other site 1208658011507 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 1208658011508 RNA binding site [nucleotide binding]; other site 1208658011509 domain interface; other site 1208658011510 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 1208658011511 16S/18S rRNA binding site [nucleotide binding]; other site 1208658011512 S13e-L30e interaction site [polypeptide binding]; other site 1208658011513 25S rRNA binding site [nucleotide binding]; other site 1208658011514 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1208658011515 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 1208658011516 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1208658011517 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1208658011518 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1208658011519 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1208658011520 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1208658011521 putative valine binding site [chemical binding]; other site 1208658011522 dimer interface [polypeptide binding]; other site 1208658011523 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1208658011524 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 1208658011525 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208658011526 PYR/PP interface [polypeptide binding]; other site 1208658011527 dimer interface [polypeptide binding]; other site 1208658011528 TPP binding site [chemical binding]; other site 1208658011529 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208658011530 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 1208658011531 TPP-binding site [chemical binding]; other site 1208658011532 dimer interface [polypeptide binding]; other site 1208658011533 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1208658011534 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1208658011535 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 1208658011536 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208658011537 putative substrate translocation pore; other site 1208658011538 hypothetical protein; Validated; Region: PRK02101 1208658011539 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1208658011540 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 1208658011541 NAD binding site [chemical binding]; other site 1208658011542 homotetramer interface [polypeptide binding]; other site 1208658011543 homodimer interface [polypeptide binding]; other site 1208658011544 substrate binding site [chemical binding]; other site 1208658011545 active site 1208658011546 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1208658011547 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1208658011548 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 1208658011549 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1208658011550 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1208658011551 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1208658011552 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1208658011553 IucA / IucC family; Region: IucA_IucC; pfam04183 1208658011554 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1208658011555 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 1208658011557 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1208658011558 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208658011559 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 1208658011560 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1208658011561 putative substrate translocation pore; other site 1208658011562 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1208658011563 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 1208658011564 N-terminal plug; other site 1208658011565 ligand-binding site [chemical binding]; other site 1208658011566 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658011567 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658011568 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 1208658011569 substrate binding site [chemical binding]; other site 1208658011570 oxyanion hole (OAH) forming residues; other site 1208658011571 trimer interface [polypeptide binding]; other site 1208658011572 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658011573 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658011574 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658011575 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208658011576 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658011577 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1208658011578 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208658011579 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208658011580 metal binding site [ion binding]; metal-binding site 1208658011581 active site 1208658011582 I-site; other site 1208658011583 seryl-tRNA synthetase; Provisional; Region: PRK05431 1208658011584 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1208658011585 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 1208658011586 dimer interface [polypeptide binding]; other site 1208658011587 active site 1208658011588 motif 1; other site 1208658011589 motif 2; other site 1208658011590 motif 3; other site 1208658011591 recombination factor protein RarA; Reviewed; Region: PRK13342 1208658011592 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 1208658011593 Walker A motif; other site 1208658011594 ATP binding site [chemical binding]; other site 1208658011595 Walker B motif; other site 1208658011596 arginine finger; other site 1208658011597 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1208658011598 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1208658011599 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1208658011600 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1208658011601 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1208658011602 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1208658011603 thioredoxin reductase; Provisional; Region: PRK10262 1208658011604 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1208658011605 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208658011606 Smr domain; Region: Smr; pfam01713 1208658011607 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1208658011608 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1208658011609 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 1208658011610 putative solute:sodium symporter small subunit; Region: Na_symport_sm; TIGR03647 1208658011611 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1208658011612 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1208658011613 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1208658011614 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1208658011615 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1208658011616 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1208658011617 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 1208658011618 Ligand Binding Site [chemical binding]; other site 1208658011619 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1208658011620 GAF domain; Region: GAF_3; pfam13492 1208658011621 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 1208658011622 dimer interface [polypeptide binding]; other site 1208658011623 phosphorylation site [posttranslational modification] 1208658011624 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 1208658011625 ATP binding site [chemical binding]; other site 1208658011626 Mg2+ binding site [ion binding]; other site 1208658011627 G-X-G motif; other site 1208658011628 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1208658011629 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 1208658011630 active site 1208658011631 phosphorylation site [posttranslational modification] 1208658011632 intermolecular recognition site; other site 1208658011633 dimerization interface [polypeptide binding]; other site 1208658011634 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 1208658011635 DNA binding site [nucleotide binding] 1208658011636 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1208658011637 O-Antigen ligase; Region: Wzy_C; pfam04932 1208658011638 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1208658011639 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 1208658011640 isocitrate dehydrogenase; Validated; Region: PRK07362 1208658011641 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1208658011642 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 1208658011643 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1208658011644 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1208658011645 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1208658011646 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1208658011647 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1208658011648 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 1208658011649 Walker A motif; other site 1208658011650 ATP binding site [chemical binding]; other site 1208658011651 Walker B motif; other site 1208658011652 arginine finger; other site 1208658011653 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1208658011654 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1208658011655 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1208658011656 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1208658011657 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1208658011658 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1208658011659 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1208658011660 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1208658011661 chaperone protein DnaJ; Provisional; Region: PRK10767 1208658011662 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 1208658011663 HSP70 interaction site [polypeptide binding]; other site 1208658011664 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1208658011665 Zn binding sites [ion binding]; other site 1208658011666 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1208658011667 dimer interface [polypeptide binding]; other site 1208658011668 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1208658011669 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1208658011670 nucleotide binding site [chemical binding]; other site 1208658011671 NEF interaction site [polypeptide binding]; other site 1208658011672 SBD interface [polypeptide binding]; other site 1208658011673 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 1208658011674 GrpE; Region: GrpE; pfam01025 1208658011675 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 1208658011676 dimer interface [polypeptide binding]; other site 1208658011677 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1208658011678 ferrochelatase; Reviewed; Region: hemH; PRK00035 1208658011679 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 1208658011680 C-terminal domain interface [polypeptide binding]; other site 1208658011681 active site 1208658011682 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 1208658011683 active site 1208658011684 N-terminal domain interface [polypeptide binding]; other site 1208658011685 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1208658011686 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1208658011687 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 1208658011688 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1208658011689 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1208658011690 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1208658011691 Walker A/P-loop; other site 1208658011692 ATP binding site [chemical binding]; other site 1208658011693 Q-loop/lid; other site 1208658011694 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1208658011695 ABC transporter signature motif; other site 1208658011696 Walker B; other site 1208658011697 D-loop; other site 1208658011698 H-loop/switch region; other site 1208658011699 ferric uptake regulator; Provisional; Region: fur; PRK09462 1208658011700 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1208658011701 metal binding site 2 [ion binding]; metal-binding site 1208658011702 putative DNA binding helix; other site 1208658011703 metal binding site 1 [ion binding]; metal-binding site 1208658011704 dimer interface [polypeptide binding]; other site 1208658011705 structural Zn2+ binding site [ion binding]; other site 1208658011706 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1208658011707 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1208658011708 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1208658011709 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1208658011710 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1208658011711 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1208658011712 FAD binding domain; Region: FAD_binding_4; pfam01565 1208658011713 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1208658011714 pyrimidine utilization protein D; Region: RutD; TIGR03611 1208658011715 Serine hydrolase; Region: Ser_hydrolase; cl17834 1208658011716 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1208658011717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208658011718 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1208658011719 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1208658011720 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1208658011721 putative active site [active] 1208658011722 putative substrate binding site [chemical binding]; other site 1208658011723 putative cosubstrate binding site; other site 1208658011724 catalytic site [active] 1208658011725 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1208658011726 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1208658011727 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1208658011728 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1208658011729 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 1208658011730 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1208658011731 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1208658011732 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 1208658011733 active site 1208658011734 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1208658011735 dimer interface [polypeptide binding]; other site 1208658011736 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658011737 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658011738 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 1208658011739 dimerization interface [polypeptide binding]; other site 1208658011740 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1208658011741 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 1208658011742 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1208658011743 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1208658011744 homodimer interface [polypeptide binding]; other site 1208658011745 NADP binding site [chemical binding]; other site 1208658011746 substrate binding site [chemical binding]; other site 1208658011747 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658011748 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658011749 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658011750 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 1208658011751 putative active site [active] 1208658011752 putative catalytic site [active] 1208658011753 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1208658011754 enoyl-CoA hydratase; Provisional; Region: PRK06688 1208658011755 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 1208658011756 substrate binding site [chemical binding]; other site 1208658011757 oxyanion hole (OAH) forming residues; other site 1208658011758 trimer interface [polypeptide binding]; other site 1208658011759 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658011760 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658011761 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658011762 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 1208658011763 putative dimerization interface [polypeptide binding]; other site 1208658011764 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208658011765 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 1208658011766 TLC ATP/ADP transporter; Region: TLC; cl03940 1208658011767 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 1208658011768 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1208658011769 active site 1208658011770 catalytic tetrad [active] 1208658011771 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208658011772 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1208658011773 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208658011774 DctM-like transporters; Region: DctM; pfam06808 1208658011775 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208658011776 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658011777 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658011778 DNA-binding site [nucleotide binding]; DNA binding site 1208658011779 FCD domain; Region: FCD; pfam07729 1208658011780 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1208658011781 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1208658011782 extended (e) SDRs; Region: SDR_e; cd08946 1208658011783 NAD(P) binding site [chemical binding]; other site 1208658011784 active site 1208658011785 substrate binding site [chemical binding]; other site 1208658011786 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1208658011787 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1208658011788 DNA binding residues [nucleotide binding] 1208658011789 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1208658011790 dimer interface [polypeptide binding]; other site 1208658011791 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1208658011792 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 1208658011793 non-specific DNA binding site [nucleotide binding]; other site 1208658011794 salt bridge; other site 1208658011795 sequence-specific DNA binding site [nucleotide binding]; other site 1208658011796 Cupin domain; Region: Cupin_2; pfam07883 1208658011797 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1208658011798 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208658011799 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1208658011800 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1208658011801 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1208658011802 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658011803 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1208658011804 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1208658011805 LysE type translocator; Region: LysE; cl00565 1208658011806 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 1208658011807 DoxX; Region: DoxX; pfam07681 1208658011808 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658011809 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658011810 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 1208658011811 putative effector binding pocket; other site 1208658011812 dimerization interface [polypeptide binding]; other site 1208658011813 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1208658011814 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 1208658011815 nudix motif; other site 1208658011816 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1208658011817 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1208658011818 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1208658011819 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1208658011820 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1208658011821 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 1208658011822 quinone interaction residues [chemical binding]; other site 1208658011823 active site 1208658011824 catalytic residues [active] 1208658011825 FMN binding site [chemical binding]; other site 1208658011826 substrate binding site [chemical binding]; other site 1208658011827 Phasin protein; Region: Phasin_2; pfam09361 1208658011828 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658011829 Rho-activating domain of cytotoxic necrotizing factor; Region: CNF1; pfam05785 1208658011830 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208658011831 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658011832 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658011833 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 1208658011834 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 1208658011835 MPT binding site; other site 1208658011836 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 1208658011837 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 1208658011838 catalytic residues [active] 1208658011839 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 1208658011840 putative Mg++ binding site [ion binding]; other site 1208658011841 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 1208658011842 nucleotide binding region [chemical binding]; other site 1208658011843 ATP-binding site [chemical binding]; other site 1208658011844 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1208658011845 AzlC protein; Region: AzlC; pfam03591 1208658011846 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1208658011847 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 1208658011848 homodimer interface [polypeptide binding]; other site 1208658011849 substrate-cofactor binding pocket; other site 1208658011850 catalytic residue [active] 1208658011851 Zinc-finger domain; Region: zf-CHCC; cl01821 1208658011852 SnoaL-like domain; Region: SnoaL_3; pfam13474 1208658011853 SnoaL-like domain; Region: SnoaL_2; pfam12680 1208658011854 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1208658011855 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1208658011856 Peptidase family M48; Region: Peptidase_M48; cl12018 1208658011857 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1208658011858 active site 1208658011859 tetramer interface; other site 1208658011860 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 1208658011861 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1208658011862 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 1208658011863 trimer interface [polypeptide binding]; other site 1208658011864 eyelet of channel; other site 1208658011865 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 1208658011866 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1208658011867 proline aminopeptidase P II; Provisional; Region: PRK10879 1208658011868 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 1208658011869 active site 1208658011870 hypothetical protein; Provisional; Region: PRK06996 1208658011871 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1208658011872 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1208658011873 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 1208658011874 FMN binding site [chemical binding]; other site 1208658011875 active site 1208658011876 catalytic residues [active] 1208658011877 substrate binding site [chemical binding]; other site 1208658011878 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1208658011879 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1208658011880 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 1208658011881 purine monophosphate binding site [chemical binding]; other site 1208658011882 dimer interface [polypeptide binding]; other site 1208658011883 putative catalytic residues [active] 1208658011884 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1208658011885 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1208658011886 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 1208658011887 active site 1208658011888 putative DNA-binding cleft [nucleotide binding]; other site 1208658011889 dimer interface [polypeptide binding]; other site 1208658011890 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1208658011891 RuvA N terminal domain; Region: RuvA_N; pfam01330 1208658011892 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1208658011893 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1208658011894 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1208658011895 putative NAD(P) binding site [chemical binding]; other site 1208658011896 active site 1208658011897 serine racemase; Region: PLN02970 1208658011898 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 1208658011899 tetramer interface [polypeptide binding]; other site 1208658011900 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658011901 catalytic residue [active] 1208658011902 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1208658011903 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 1208658011904 Walker A motif; other site 1208658011905 ATP binding site [chemical binding]; other site 1208658011906 Walker B motif; other site 1208658011907 arginine finger; other site 1208658011908 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1208658011909 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1208658011910 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 1208658011911 ATP binding site [chemical binding]; other site 1208658011912 putative Mg++ binding site [ion binding]; other site 1208658011913 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 1208658011914 nucleotide binding region [chemical binding]; other site 1208658011915 ATP-binding site [chemical binding]; other site 1208658011916 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1208658011917 HRDC domain; Region: HRDC; pfam00570 1208658011918 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1208658011919 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1208658011920 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 1208658011921 active site 1208658011922 phosphorylation site [posttranslational modification] 1208658011923 intermolecular recognition site; other site 1208658011924 dimerization interface [polypeptide binding]; other site 1208658011925 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 1208658011926 DNA binding site [nucleotide binding] 1208658011927 sensor protein RstB; Provisional; Region: PRK10604 1208658011928 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 1208658011929 ATP binding site [chemical binding]; other site 1208658011930 Mg2+ binding site [ion binding]; other site 1208658011931 G-X-G motif; other site 1208658011932 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1208658011933 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1208658011934 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1208658011935 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1208658011936 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1208658011937 active site 1208658011938 HIGH motif; other site 1208658011939 nucleotide binding site [chemical binding]; other site 1208658011940 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1208658011941 KMSKS motif; other site 1208658011942 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1208658011943 septum formation inhibitor; Provisional; Region: minC; PRK00030 1208658011944 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1208658011945 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1208658011946 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1208658011947 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 1208658011948 Switch I; other site 1208658011949 Switch II; other site 1208658011950 cell division topological specificity factor MinE; Provisional; Region: PRK13989 1208658011951 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 1208658011952 Isochorismatase family; Region: Isochorismatase; pfam00857 1208658011953 catalytic triad [active] 1208658011954 conserved cis-peptide bond; other site 1208658011955 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1208658011956 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208658011957 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208658011958 ABC transporter; Region: ABC_tran_2; pfam12848 1208658011959 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208658011960 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208658011961 EamA-like transporter family; Region: EamA; pfam00892 1208658011962 EamA-like transporter family; Region: EamA; pfam00892 1208658011963 indole acetimide hydrolase; Validated; Region: PRK07488 1208658011964 Amidase; Region: Amidase; cl11426 1208658011965 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1208658011966 dimer interface [polypeptide binding]; other site 1208658011967 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1208658011968 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658011969 Walker A/P-loop; other site 1208658011970 ATP binding site [chemical binding]; other site 1208658011971 Q-loop/lid; other site 1208658011972 ABC transporter signature motif; other site 1208658011973 Walker B; other site 1208658011974 D-loop; other site 1208658011975 H-loop/switch region; other site 1208658011976 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1208658011977 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1208658011978 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658011979 Walker A/P-loop; other site 1208658011980 ATP binding site [chemical binding]; other site 1208658011981 Q-loop/lid; other site 1208658011982 ABC transporter signature motif; other site 1208658011983 Walker B; other site 1208658011984 D-loop; other site 1208658011985 H-loop/switch region; other site 1208658011986 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658011987 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1208658011988 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658011989 dimer interface [polypeptide binding]; other site 1208658011990 conserved gate region; other site 1208658011991 putative PBP binding loops; other site 1208658011992 ABC-ATPase subunit interface; other site 1208658011993 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208658011994 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658011995 dimer interface [polypeptide binding]; other site 1208658011996 conserved gate region; other site 1208658011997 putative PBP binding loops; other site 1208658011998 ABC-ATPase subunit interface; other site 1208658011999 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1208658012000 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 1208658012001 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1208658012002 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 1208658012003 active site 1208658012004 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658012005 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658012006 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 1208658012007 putative effector binding pocket; other site 1208658012008 dimerization interface [polypeptide binding]; other site 1208658012009 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1208658012010 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658012011 Walker A/P-loop; other site 1208658012012 ATP binding site [chemical binding]; other site 1208658012013 Q-loop/lid; other site 1208658012014 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658012015 ABC transporter signature motif; other site 1208658012016 Walker B; other site 1208658012017 D-loop; other site 1208658012018 H-loop/switch region; other site 1208658012019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658012020 Walker A/P-loop; other site 1208658012021 ATP binding site [chemical binding]; other site 1208658012022 Q-loop/lid; other site 1208658012023 ABC transporter signature motif; other site 1208658012024 Walker B; other site 1208658012025 D-loop; other site 1208658012026 H-loop/switch region; other site 1208658012027 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1208658012028 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1208658012029 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658012030 Walker A/P-loop; other site 1208658012031 ATP binding site [chemical binding]; other site 1208658012032 Q-loop/lid; other site 1208658012033 ABC transporter signature motif; other site 1208658012034 Walker B; other site 1208658012035 D-loop; other site 1208658012036 H-loop/switch region; other site 1208658012037 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1208658012038 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1208658012039 hypothetical protein; Provisional; Region: PRK07546 1208658012040 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1208658012041 substrate-cofactor binding pocket; other site 1208658012042 short chain dehydrogenase; Provisional; Region: PRK07577 1208658012043 classical (c) SDRs; Region: SDR_c; cd05233 1208658012044 NAD(P) binding site [chemical binding]; other site 1208658012045 active site 1208658012046 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658012047 acyl-CoA synthetase; Validated; Region: PRK06164 1208658012048 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658012049 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658012050 AMP binding site [chemical binding]; other site 1208658012051 active site 1208658012052 acyl-activating enzyme (AAE) consensus motif; other site 1208658012053 CoA binding site [chemical binding]; other site 1208658012054 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208658012055 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658012056 DNA-binding site [nucleotide binding]; DNA binding site 1208658012057 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1208658012058 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1208658012059 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 1208658012060 putative ATP binding site [chemical binding]; other site 1208658012061 putative substrate interface [chemical binding]; other site 1208658012062 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 1208658012063 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208658012064 putative substrate translocation pore; other site 1208658012065 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1208658012066 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 1208658012067 putative active site pocket [active] 1208658012068 dimerization interface [polypeptide binding]; other site 1208658012069 putative catalytic residue [active] 1208658012070 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1208658012071 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1208658012072 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1208658012073 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1208658012074 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1208658012075 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1208658012076 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1208658012077 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1208658012078 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1208658012079 putative active site [active] 1208658012080 putative substrate binding site [chemical binding]; other site 1208658012081 putative cosubstrate binding site; other site 1208658012082 catalytic site [active] 1208658012083 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658012084 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 1208658012085 putative dimerization interface [polypeptide binding]; other site 1208658012086 putative substrate binding pocket [chemical binding]; other site 1208658012087 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658012088 active site 1208658012089 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658012090 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658012091 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658012092 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1208658012093 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1208658012094 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1208658012095 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658012096 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 1208658012097 dimerization interface [polypeptide binding]; other site 1208658012098 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658012099 Predicted permeases [General function prediction only]; Region: COG0679 1208658012100 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1208658012101 Class II fumarases; Region: Fumarase_classII; cd01362 1208658012102 active site 1208658012103 tetramer interface [polypeptide binding]; other site 1208658012104 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1208658012105 AMIN domain; Region: AMIN; pfam11741 1208658012106 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 1208658012107 active site 1208658012108 metal binding site [ion binding]; metal-binding site 1208658012109 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1208658012110 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1208658012111 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 1208658012112 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 1208658012113 ATP binding site [chemical binding]; other site 1208658012114 Mg2+ binding site [ion binding]; other site 1208658012115 G-X-G motif; other site 1208658012116 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 1208658012117 ATP binding site [chemical binding]; other site 1208658012118 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1208658012119 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1208658012120 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1208658012121 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1208658012122 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 1208658012123 dimerization interface [polypeptide binding]; other site 1208658012124 putative ATP binding site [chemical binding]; other site 1208658012125 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 1208658012126 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1208658012127 Walker A motif; other site 1208658012128 ATP binding site [chemical binding]; other site 1208658012129 Walker B motif; other site 1208658012130 arginine finger; other site 1208658012131 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1208658012132 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1208658012133 poly(A) polymerase; Region: pcnB; TIGR01942 1208658012134 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1208658012135 active site 1208658012136 NTP binding site [chemical binding]; other site 1208658012137 metal binding triad [ion binding]; metal-binding site 1208658012138 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1208658012139 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1208658012140 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 1208658012141 catalytic center binding site [active] 1208658012142 ATP binding site [chemical binding]; other site 1208658012143 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658012144 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1208658012145 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208658012146 DctM-like transporters; Region: DctM; pfam06808 1208658012147 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208658012148 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658012149 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658012150 DNA-binding site [nucleotide binding]; DNA binding site 1208658012151 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658012152 FCD domain; Region: FCD; pfam07729 1208658012153 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional; Region: PRK15461 1208658012154 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1208658012155 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1208658012156 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1208658012157 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1208658012158 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658012159 NAD(P) binding site [chemical binding]; other site 1208658012160 active site 1208658012161 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1208658012162 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1208658012163 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208658012164 classical (c) SDRs; Region: SDR_c; cd05233 1208658012165 NAD(P) binding site [chemical binding]; other site 1208658012166 active site 1208658012167 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658012168 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 1208658012169 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1208658012170 substrate binding site [chemical binding]; other site 1208658012171 ATP binding site [chemical binding]; other site 1208658012172 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1208658012173 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658012174 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658012175 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1208658012176 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 1208658012177 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 1208658012178 active site 2 [active] 1208658012179 active site 1 [active] 1208658012180 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1208658012181 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1208658012182 enoyl-CoA hydratase; Provisional; Region: PRK08252 1208658012183 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 1208658012184 substrate binding site [chemical binding]; other site 1208658012185 oxyanion hole (OAH) forming residues; other site 1208658012186 trimer interface [polypeptide binding]; other site 1208658012187 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658012188 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208658012189 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658012190 DNA-binding site [nucleotide binding]; DNA binding site 1208658012191 UTRA domain; Region: UTRA; pfam07702 1208658012192 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1208658012193 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1208658012194 substrate binding site [chemical binding]; other site 1208658012195 ligand binding site [chemical binding]; other site 1208658012196 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 1208658012197 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 1208658012198 substrate binding site [chemical binding]; other site 1208658012199 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 1208658012200 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1208658012201 tetramer interface [polypeptide binding]; other site 1208658012202 active site 1208658012203 Mg2+/Mn2+ binding site [ion binding]; other site 1208658012204 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208658012205 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 1208658012206 putative substrate translocation pore; other site 1208658012207 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 1208658012208 dimer interface [polypeptide binding]; other site 1208658012209 motif 1; other site 1208658012210 active site 1208658012211 motif 2; other site 1208658012212 motif 3; other site 1208658012213 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1208658012214 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1208658012215 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 1208658012216 active site 1208658012217 motif I; other site 1208658012218 motif II; other site 1208658012219 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1208658012220 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1208658012221 putative acyl-acceptor binding pocket; other site 1208658012222 Protein of unknown function DUF45; Region: DUF45; pfam01863 1208658012223 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208658012224 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1208658012225 dimer interface [polypeptide binding]; other site 1208658012226 active site 1208658012227 metal binding site [ion binding]; metal-binding site 1208658012228 glutathione binding site [chemical binding]; other site 1208658012229 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 1208658012230 active site 1208658012231 catalytic residues [active] 1208658012232 metal binding site [ion binding]; metal-binding site 1208658012233 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 1208658012234 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658012235 active site 1208658012236 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1208658012237 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1208658012238 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1208658012239 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 1208658012240 pyruvate kinase; Provisional; Region: PRK05826 1208658012241 domain interfaces; other site 1208658012242 active site 1208658012243 glycerate kinase; Region: TIGR00045 1208658012244 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1208658012245 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 1208658012246 S-adenosylmethionine binding site [chemical binding]; other site 1208658012247 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1208658012248 SurA N-terminal domain; Region: SurA_N; pfam09312 1208658012249 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1208658012250 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1208658012251 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1208658012252 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1208658012253 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1208658012254 Phosphotransferase enzyme family; Region: APH; pfam01636 1208658012255 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 1208658012256 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1208658012257 Substrate binding site; other site 1208658012258 metal-binding site 1208658012259 hypothetical protein; Validated; Region: PRK09039 1208658012260 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 1208658012261 aromatic arch; other site 1208658012262 DCoH dimer interaction site [polypeptide binding]; other site 1208658012263 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1208658012264 DCoH tetramer interaction site [polypeptide binding]; other site 1208658012265 substrate binding site [chemical binding]; other site 1208658012266 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1208658012267 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1208658012268 ligand binding site [chemical binding]; other site 1208658012269 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1208658012270 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 1208658012271 tetramer interface [polypeptide binding]; other site 1208658012272 active site 1208658012273 Mg2+/Mn2+ binding site [ion binding]; other site 1208658012274 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 1208658012275 aminotransferase; Validated; Region: PRK07678 1208658012276 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 1208658012277 inhibitor-cofactor binding pocket; inhibition site 1208658012278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658012279 catalytic residue [active] 1208658012280 amidase; Provisional; Region: PRK07487 1208658012281 Amidase; Region: Amidase; cl11426 1208658012282 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1208658012283 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658012284 Walker A/P-loop; other site 1208658012285 ATP binding site [chemical binding]; other site 1208658012286 Q-loop/lid; other site 1208658012287 ABC transporter signature motif; other site 1208658012288 Walker B; other site 1208658012289 D-loop; other site 1208658012290 H-loop/switch region; other site 1208658012291 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658012292 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658012293 Walker A/P-loop; other site 1208658012294 ATP binding site [chemical binding]; other site 1208658012295 Q-loop/lid; other site 1208658012296 ABC transporter signature motif; other site 1208658012297 Walker B; other site 1208658012298 D-loop; other site 1208658012299 H-loop/switch region; other site 1208658012300 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658012301 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1208658012302 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658012303 dimer interface [polypeptide binding]; other site 1208658012304 conserved gate region; other site 1208658012305 putative PBP binding loops; other site 1208658012306 ABC-ATPase subunit interface; other site 1208658012307 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208658012308 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658012309 dimer interface [polypeptide binding]; other site 1208658012310 conserved gate region; other site 1208658012311 putative PBP binding loops; other site 1208658012312 ABC-ATPase subunit interface; other site 1208658012313 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 1208658012314 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1208658012315 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208658012316 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658012317 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658012318 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658012319 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1208658012320 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1208658012321 dimer interface [polypeptide binding]; other site 1208658012322 active site 1208658012323 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1208658012324 catalytic residues [active] 1208658012325 substrate binding site [chemical binding]; other site 1208658012326 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1208658012327 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1208658012328 NAD(P) binding pocket [chemical binding]; other site 1208658012329 RNA polymerase sigma factor; Reviewed; Region: PRK12527 1208658012330 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208658012331 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 1208658012332 DNA binding residues [nucleotide binding] 1208658012333 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1208658012334 FecR protein; Region: FecR; pfam04773 1208658012335 Secretin and TonB N terminus short domain; Region: STN; smart00965 1208658012336 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1208658012337 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 1208658012338 N-terminal plug; other site 1208658012339 ligand-binding site [chemical binding]; other site 1208658012340 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1208658012341 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_9; cd07245 1208658012342 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208658012343 dimer interface [polypeptide binding]; other site 1208658012344 putative metal binding site [ion binding]; other site 1208658012345 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658012346 short chain dehydrogenase; Provisional; Region: PRK07041 1208658012347 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658012348 NAD(P) binding site [chemical binding]; other site 1208658012349 active site 1208658012350 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1208658012351 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1208658012352 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1208658012353 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1208658012354 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208658012355 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1208658012356 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208658012357 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1208658012358 hypothetical protein; Validated; Region: PRK06201 1208658012359 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658012360 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658012361 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1208658012362 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1208658012363 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1208658012364 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1208658012365 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1208658012367 Integrase core domain; Region: rve; pfam00665 1208658012368 Integrase core domain; Region: rve_3; pfam13683 1208658012369 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 1208658012370 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1208658012371 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 1208658012372 non-specific DNA binding site [nucleotide binding]; other site 1208658012373 salt bridge; other site 1208658012374 sequence-specific DNA binding site [nucleotide binding]; other site 1208658012375 Domain of unknown function (DUF955); Region: DUF955; cl01076 1208658012376 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1208658012377 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 1208658012378 active site 1208658012379 DNA binding site [nucleotide binding] 1208658012380 Int/Topo IB signature motif; other site 1208658012381 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1208658012382 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658012383 NAD(P) binding site [chemical binding]; other site 1208658012384 active site 1208658012385 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658012386 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658012387 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1208658012388 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1208658012389 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1208658012390 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1208658012391 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1208658012392 DNA binding residues [nucleotide binding] 1208658012393 dimer interface [polypeptide binding]; other site 1208658012394 [2Fe-2S] cluster binding site [ion binding]; other site 1208658012395 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208658012396 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658012397 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1208658012398 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1208658012399 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1208658012400 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 1208658012401 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1208658012402 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658012403 Walker A/P-loop; other site 1208658012404 ATP binding site [chemical binding]; other site 1208658012405 Q-loop/lid; other site 1208658012406 ABC transporter signature motif; other site 1208658012407 Walker B; other site 1208658012408 D-loop; other site 1208658012409 H-loop/switch region; other site 1208658012410 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1208658012411 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658012412 dimer interface [polypeptide binding]; other site 1208658012413 conserved gate region; other site 1208658012414 putative PBP binding loops; other site 1208658012415 ABC-ATPase subunit interface; other site 1208658012416 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658012417 dimer interface [polypeptide binding]; other site 1208658012418 conserved gate region; other site 1208658012419 putative PBP binding loops; other site 1208658012420 ABC-ATPase subunit interface; other site 1208658012421 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1208658012422 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658012423 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1208658012424 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658012425 DNA-binding site [nucleotide binding]; DNA binding site 1208658012426 FCD domain; Region: FCD; pfam07729 1208658012427 Protein of unknown function (DUF521); Region: DUF521; pfam04412 1208658012428 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 1208658012429 substrate binding site [chemical binding]; other site 1208658012430 ligand binding site [chemical binding]; other site 1208658012431 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 1208658012432 substrate binding site [chemical binding]; other site 1208658012433 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1208658012434 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1208658012435 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 1208658012436 putative active site [active] 1208658012437 metal binding site [ion binding]; metal-binding site 1208658012438 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1208658012439 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1208658012440 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658012441 ABC-ATPase subunit interface; other site 1208658012442 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1208658012443 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1208658012444 Walker A/P-loop; other site 1208658012445 ATP binding site [chemical binding]; other site 1208658012446 Q-loop/lid; other site 1208658012447 ABC transporter signature motif; other site 1208658012448 Walker B; other site 1208658012449 D-loop; other site 1208658012450 H-loop/switch region; other site 1208658012451 NIL domain; Region: NIL; pfam09383 1208658012452 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1208658012453 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1208658012454 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 1208658012455 active site 1208658012456 catalytic site [active] 1208658012457 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1208658012458 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 1208658012459 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1208658012460 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 1208658012461 active site 1208658012462 dimerization interface [polypeptide binding]; other site 1208658012463 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1208658012464 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658012465 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1208658012466 acyl-activating enzyme (AAE) consensus motif; other site 1208658012467 putative AMP binding site [chemical binding]; other site 1208658012468 putative active site [active] 1208658012469 putative CoA binding site [chemical binding]; other site 1208658012470 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1208658012471 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1208658012472 metal binding site [ion binding]; metal-binding site 1208658012473 putative dimer interface [polypeptide binding]; other site 1208658012474 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658012475 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658012476 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 1208658012477 putative dimerization interface [polypeptide binding]; other site 1208658012478 Predicted membrane protein [Function unknown]; Region: COG2855 1208658012479 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 1208658012480 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1208658012481 MgtE intracellular N domain; Region: MgtE_N; smart00924 1208658012482 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 1208658012483 Divalent cation transporter; Region: MgtE; pfam01769 1208658012484 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 1208658012485 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1208658012486 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 1208658012487 putative active site pocket [active] 1208658012488 dimerization interface [polypeptide binding]; other site 1208658012489 putative catalytic residue [active] 1208658012490 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208658012491 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 1208658012492 putative DNA binding site [nucleotide binding]; other site 1208658012493 putative Zn2+ binding site [ion binding]; other site 1208658012494 AsnC family; Region: AsnC_trans_reg; pfam01037 1208658012495 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1208658012496 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1208658012497 short chain dehydrogenase; Provisional; Region: PRK08339 1208658012498 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1208658012499 putative NAD(P) binding site [chemical binding]; other site 1208658012500 putative active site [active] 1208658012501 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1208658012502 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658012503 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1208658012504 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1208658012505 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1208658012506 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 1208658012507 nucleotide binding region [chemical binding]; other site 1208658012508 ATP-binding site [chemical binding]; other site 1208658012509 SEC-C motif; Region: SEC-C; pfam02810 1208658012510 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1208658012511 Peptidase family M23; Region: Peptidase_M23; pfam01551 1208658012512 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 1208658012513 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1208658012514 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1208658012515 cell division protein FtsZ; Validated; Region: PRK09330 1208658012516 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 1208658012517 nucleotide binding site [chemical binding]; other site 1208658012518 SulA interaction site; other site 1208658012519 cell division protein FtsA; Region: ftsA; TIGR01174 1208658012520 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1208658012521 nucleotide binding site [chemical binding]; other site 1208658012522 Cell division protein FtsA; Region: FtsA; pfam14450 1208658012523 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1208658012524 Cell division protein FtsQ; Region: FtsQ; pfam03799 1208658012525 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1208658012526 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1208658012527 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208658012528 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1208658012529 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1208658012530 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208658012531 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208658012532 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1208658012533 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 1208658012534 active site 1208658012535 homodimer interface [polypeptide binding]; other site 1208658012536 cell division protein FtsW; Region: ftsW; TIGR02614 1208658012537 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 1208658012538 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208658012539 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208658012540 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1208658012541 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 1208658012542 Mg++ binding site [ion binding]; other site 1208658012543 putative catalytic motif [active] 1208658012544 putative substrate binding site [chemical binding]; other site 1208658012545 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional; Region: PRK11929 1208658012546 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1208658012547 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208658012548 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208658012549 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1208658012550 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208658012551 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208658012552 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1208658012553 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1208658012554 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1208658012555 cell division protein FtsL; Region: ftsL_broad; TIGR02209 1208658012556 MraW methylase family; Region: Methyltransf_5; cl17771 1208658012557 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1208658012558 cell division protein MraZ; Reviewed; Region: PRK00326 1208658012559 MraZ protein; Region: MraZ; pfam02381 1208658012560 MraZ protein; Region: MraZ; pfam02381 1208658012561 ABC transporter ATPase component; Reviewed; Region: PRK11147 1208658012562 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208658012563 ABC transporter; Region: ABC_tran_2; pfam12848 1208658012564 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208658012565 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 1208658012566 active site 1208658012567 substrate binding pocket [chemical binding]; other site 1208658012568 dimer interface [polypeptide binding]; other site 1208658012569 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1208658012570 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1208658012571 metal binding site [ion binding]; metal-binding site 1208658012572 putative dimer interface [polypeptide binding]; other site 1208658012573 SWI complex, BAF60b domains; Region: SWIB; smart00151 1208658012574 Predicted membrane protein [Function unknown]; Region: COG3671 1208658012575 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1208658012576 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 1208658012577 dimerization interface [polypeptide binding]; other site 1208658012578 putative DNA binding site [nucleotide binding]; other site 1208658012579 putative Zn2+ binding site [ion binding]; other site 1208658012580 AsnC family; Region: AsnC_trans_reg; pfam01037 1208658012581 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1208658012582 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1208658012583 dimer interface [polypeptide binding]; other site 1208658012584 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1208658012585 active site 1208658012586 Fe binding site [ion binding]; other site 1208658012587 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1208658012588 Cytochrome c; Region: Cytochrom_C; cl11414 1208658012589 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1208658012590 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1208658012591 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1208658012592 Cell division protein ZapA; Region: ZapA; pfam05164 1208658012593 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1208658012594 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1208658012595 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1208658012596 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1208658012597 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1208658012598 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1208658012599 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1208658012600 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1208658012601 LysR family transcriptional regulator; Provisional; Region: PRK14997 1208658012602 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658012603 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 1208658012604 putative effector binding pocket; other site 1208658012605 putative dimerization interface [polypeptide binding]; other site 1208658012606 Tir chaperone protein (CesT) family; Region: CesT; cl08444 1208658012607 Protein of unknown function (DUF3120); Region: DUF3220; pfam11516 1208658012608 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1208658012609 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1208658012610 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 1208658012611 dimer interface [polypeptide binding]; other site 1208658012612 phosphorylation site [posttranslational modification] 1208658012613 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 1208658012614 ATP binding site [chemical binding]; other site 1208658012615 Mg2+ binding site [ion binding]; other site 1208658012616 G-X-G motif; other site 1208658012617 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1208658012618 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 1208658012619 active site 1208658012620 phosphorylation site [posttranslational modification] 1208658012621 intermolecular recognition site; other site 1208658012622 dimerization interface [polypeptide binding]; other site 1208658012623 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 1208658012624 DNA binding site [nucleotide binding] 1208658012625 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 1208658012626 putative active site [active] 1208658012627 Ap4A binding site [chemical binding]; other site 1208658012628 nudix motif; other site 1208658012629 putative metal binding site [ion binding]; other site 1208658012630 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1208658012631 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 1208658012632 dimer interface [polypeptide binding]; other site 1208658012633 motif 1; other site 1208658012634 active site 1208658012635 motif 2; other site 1208658012636 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 1208658012637 putative deacylase active site [active] 1208658012638 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 1208658012639 active site 1208658012640 motif 3; other site 1208658012641 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 1208658012642 anticodon binding site; other site 1208658012643 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 1208658012644 active site 1208658012645 TolQ protein; Region: tolQ; TIGR02796 1208658012646 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1208658012647 TolR protein; Region: tolR; TIGR02801 1208658012648 TolA protein; Region: tolA_full; TIGR02794 1208658012649 TonB C terminal; Region: TonB_2; pfam13103 1208658012650 translocation protein TolB; Provisional; Region: tolB; PRK02889 1208658012651 TolB amino-terminal domain; Region: TolB_N; pfam04052 1208658012652 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1208658012653 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1208658012654 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1208658012655 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1208658012656 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1208658012657 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1208658012658 ligand binding site [chemical binding]; other site 1208658012659 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1208658012660 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 1208658012661 binding surface 1208658012662 TPR motif; other site 1208658012663 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1208658012664 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 1208658012665 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 1208658012666 ABC-ATPase subunit interface; other site 1208658012667 dimer interface [polypeptide binding]; other site 1208658012668 putative PBP binding regions; other site 1208658012669 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1208658012670 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1208658012671 Walker A/P-loop; other site 1208658012672 ATP binding site [chemical binding]; other site 1208658012673 Q-loop/lid; other site 1208658012674 ABC transporter signature motif; other site 1208658012675 Walker B; other site 1208658012676 D-loop; other site 1208658012677 H-loop/switch region; other site 1208658012678 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658012679 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1208658012680 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1208658012681 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1208658012682 MarR family; Region: MarR_2; pfam12802 1208658012683 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208658012684 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1208658012685 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 1208658012686 putative deacylase active site [active] 1208658012687 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1208658012688 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1208658012689 catalytic site [active] 1208658012690 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658012691 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 1208658012692 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 1208658012693 acyl-activating enzyme (AAE) consensus motif; other site 1208658012694 putative AMP binding site [chemical binding]; other site 1208658012695 putative active site [active] 1208658012696 putative CoA binding site [chemical binding]; other site 1208658012697 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1208658012698 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 1208658012699 dimer interface [polypeptide binding]; other site 1208658012700 active site 1208658012701 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658012702 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658012703 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1208658012704 active site 1208658012705 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1208658012706 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658012707 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 1208658012708 dimerization interface [polypeptide binding]; other site 1208658012709 substrate binding pocket [chemical binding]; other site 1208658012710 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658012711 enoyl-CoA hydratase; Provisional; Region: PRK09245 1208658012712 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 1208658012713 substrate binding site [chemical binding]; other site 1208658012714 oxyanion hole (OAH) forming residues; other site 1208658012715 trimer interface [polypeptide binding]; other site 1208658012716 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658012717 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658012718 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1208658012719 MgtC family; Region: MgtC; pfam02308 1208658012720 elongation factor G; Reviewed; Region: PRK00007 1208658012721 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1208658012722 G1 box; other site 1208658012723 putative GEF interaction site [polypeptide binding]; other site 1208658012724 GTP/Mg2+ binding site [chemical binding]; other site 1208658012725 Switch I region; other site 1208658012726 G2 box; other site 1208658012727 G3 box; other site 1208658012728 Switch II region; other site 1208658012729 G4 box; other site 1208658012730 G5 box; other site 1208658012731 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 1208658012732 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 1208658012733 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 1208658012734 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 1208658012735 Ligand Binding Site [chemical binding]; other site 1208658012736 Putative phosphatase (DUF442); Region: DUF442; cl17385 1208658012737 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 1208658012738 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658012739 DNA-binding site [nucleotide binding]; DNA binding site 1208658012740 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 1208658012741 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658012742 homodimer interface [polypeptide binding]; other site 1208658012743 catalytic residue [active] 1208658012744 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208658012745 EamA-like transporter family; Region: EamA; pfam00892 1208658012746 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1208658012747 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1208658012748 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1208658012749 Predicted membrane protein [Function unknown]; Region: COG4125 1208658012750 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1208658012751 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1208658012752 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 1208658012753 putative active site [active] 1208658012754 YdjC motif; other site 1208658012755 Mg binding site [ion binding]; other site 1208658012756 putative homodimer interface [polypeptide binding]; other site 1208658012757 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1208658012758 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1208658012759 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1208658012760 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1208658012761 Ligand binding site; other site 1208658012762 Putative Catalytic site; other site 1208658012763 DXD motif; other site 1208658012764 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 1208658012765 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1208658012766 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1208658012767 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 1208658012768 active site 1208658012769 catalytic site [active] 1208658012770 substrate binding site [chemical binding]; other site 1208658012771 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1208658012772 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1208658012773 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1208658012774 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208658012775 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1208658012776 RNA/DNA hybrid binding site [nucleotide binding]; other site 1208658012777 active site 1208658012778 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1208658012779 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1208658012780 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 1208658012781 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1208658012782 catalytic residue [active] 1208658012783 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1208658012784 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1208658012785 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1208658012786 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 1208658012787 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1208658012788 NAD binding site [chemical binding]; other site 1208658012789 homotetramer interface [polypeptide binding]; other site 1208658012790 homodimer interface [polypeptide binding]; other site 1208658012791 substrate binding site [chemical binding]; other site 1208658012792 active site 1208658012793 OsmC-like protein; Region: OsmC; pfam02566 1208658012794 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1208658012795 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1208658012796 putative metal binding site [ion binding]; other site 1208658012797 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658012798 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 1208658012799 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 1208658012800 dimerization interface [polypeptide binding]; other site 1208658012801 active site 1208658012802 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 1208658012803 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 1208658012804 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1208658012805 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 1208658012806 alpha subunit interface [polypeptide binding]; other site 1208658012807 active site 1208658012808 substrate binding site [chemical binding]; other site 1208658012809 Fe binding site [ion binding]; other site 1208658012810 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 1208658012811 TM-ABC transporter signature motif; other site 1208658012812 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658012813 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 1208658012814 TM-ABC transporter signature motif; other site 1208658012815 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658012816 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658012817 Walker A/P-loop; other site 1208658012818 ATP binding site [chemical binding]; other site 1208658012819 Q-loop/lid; other site 1208658012820 ABC transporter signature motif; other site 1208658012821 Walker B; other site 1208658012822 D-loop; other site 1208658012823 H-loop/switch region; other site 1208658012824 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658012825 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658012826 Walker A/P-loop; other site 1208658012827 ATP binding site [chemical binding]; other site 1208658012828 Q-loop/lid; other site 1208658012829 ABC transporter signature motif; other site 1208658012830 Walker B; other site 1208658012831 D-loop; other site 1208658012832 H-loop/switch region; other site 1208658012833 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 1208658012834 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208658012835 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 1208658012836 putative ligand binding site [chemical binding]; other site 1208658012837 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658012838 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658012839 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 1208658012840 putative substrate binding pocket [chemical binding]; other site 1208658012841 dimerization interface [polypeptide binding]; other site 1208658012842 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1208658012843 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1208658012844 NAD(P) binding site [chemical binding]; other site 1208658012845 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208658012846 Amidase; Region: Amidase; cl11426 1208658012847 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1208658012848 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 1208658012849 FMN-binding pocket [chemical binding]; other site 1208658012850 flavin binding motif; other site 1208658012851 phosphate binding motif [ion binding]; other site 1208658012852 beta-alpha-beta structure motif; other site 1208658012853 NAD binding pocket [chemical binding]; other site 1208658012854 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 1208658012855 catalytic loop [active] 1208658012856 iron binding site [ion binding]; other site 1208658012857 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1208658012858 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1208658012859 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 1208658012860 putative NADH binding site [chemical binding]; other site 1208658012861 putative active site [active] 1208658012862 nudix motif; other site 1208658012863 putative metal binding site [ion binding]; other site 1208658012864 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658012865 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658012866 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658012867 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658012868 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1208658012869 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1208658012870 NAD(P) binding site [chemical binding]; other site 1208658012871 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1208658012872 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658012873 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 1208658012874 enoyl-CoA hydratase; Provisional; Region: PRK06494 1208658012875 substrate binding site [chemical binding]; other site 1208658012876 oxyanion hole (OAH) forming residues; other site 1208658012877 trimer interface [polypeptide binding]; other site 1208658012878 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208658012879 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208658012880 Walker A/P-loop; other site 1208658012881 ATP binding site [chemical binding]; other site 1208658012882 Q-loop/lid; other site 1208658012883 ABC transporter signature motif; other site 1208658012884 Walker B; other site 1208658012885 D-loop; other site 1208658012886 H-loop/switch region; other site 1208658012887 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 1208658012888 NMT1/THI5 like; Region: NMT1; pfam09084 1208658012889 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208658012890 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658012891 dimer interface [polypeptide binding]; other site 1208658012892 conserved gate region; other site 1208658012893 putative PBP binding loops; other site 1208658012894 ABC-ATPase subunit interface; other site 1208658012895 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208658012896 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658012897 DNA-binding site [nucleotide binding]; DNA binding site 1208658012898 UTRA domain; Region: UTRA; cl17743 1208658012899 NMT1-like family; Region: NMT1_2; pfam13379 1208658012900 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1208658012901 membrane-bound complex binding site; other site 1208658012902 hinge residues; other site 1208658012903 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658012904 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208658012905 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658012906 DNA-binding site [nucleotide binding]; DNA binding site 1208658012907 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 1208658012908 gating phenylalanine in ion channel; other site 1208658012909 Sulfatase; Region: Sulfatase; cl17466 1208658012910 choline dehydrogenase; Validated; Region: PRK02106 1208658012911 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1208658012912 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1208658012913 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 1208658012914 FMN-binding pocket [chemical binding]; other site 1208658012915 flavin binding motif; other site 1208658012916 phosphate binding motif [ion binding]; other site 1208658012917 beta-alpha-beta structure motif; other site 1208658012918 NAD binding pocket [chemical binding]; other site 1208658012919 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 1208658012920 catalytic loop [active] 1208658012921 iron binding site [ion binding]; other site 1208658012922 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 1208658012923 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1208658012924 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1208658012925 hydrophobic ligand binding site; other site 1208658012926 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208658012927 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1208658012928 tetramerization interface [polypeptide binding]; other site 1208658012929 NAD(P) binding site [chemical binding]; other site 1208658012930 catalytic residues [active] 1208658012931 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 1208658012932 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1208658012933 UreF; Region: UreF; pfam01730 1208658012934 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 1208658012935 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 1208658012936 dimer interface [polypeptide binding]; other site 1208658012937 catalytic residues [active] 1208658012938 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1208658012939 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 1208658012940 subunit interactions [polypeptide binding]; other site 1208658012941 active site 1208658012942 flap region; other site 1208658012943 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 1208658012944 gamma-beta subunit interface [polypeptide binding]; other site 1208658012945 alpha-beta subunit interface [polypeptide binding]; other site 1208658012946 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 1208658012947 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 1208658012948 alpha-gamma subunit interface [polypeptide binding]; other site 1208658012949 beta-gamma subunit interface [polypeptide binding]; other site 1208658012950 UreD urease accessory protein; Region: UreD; cl00530 1208658012952 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1208658012953 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 1208658012954 catalytic loop [active] 1208658012955 iron binding site [ion binding]; other site 1208658012956 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1208658012957 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208658012958 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658012959 DNA-binding site [nucleotide binding]; DNA binding site 1208658012960 UTRA domain; Region: UTRA; pfam07702 1208658012961 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 1208658012962 dimer interface [polypeptide binding]; other site 1208658012963 Methylaspartate ammonia-lyase C-terminus; Region: MAAL_C; pfam07476 1208658012964 active site 1208658012965 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658012966 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1208658012967 D-galactonate transporter; Region: 2A0114; TIGR00893 1208658012968 SpoVR family protein; Provisional; Region: PRK11767 1208658012969 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1208658012970 hypothetical protein; Provisional; Region: PRK05325 1208658012971 PrkA family serine protein kinase; Provisional; Region: PRK15455 1208658012972 AAA ATPase domain; Region: AAA_16; pfam13191 1208658012973 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1208658012974 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1208658012975 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 1208658012976 catalytic motif [active] 1208658012977 Zn binding site [ion binding]; other site 1208658012978 RibD C-terminal domain; Region: RibD_C; cl17279 1208658012979 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 1208658012980 catalytic triad [active] 1208658012981 conserved cis-peptide bond; other site 1208658012982 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1208658012983 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1208658012984 conserved cys residue [active] 1208658012985 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1208658012986 ATP cone domain; Region: ATP-cone; pfam03477 1208658012987 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1208658012988 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 1208658012989 dimer interface [polypeptide binding]; other site 1208658012990 active site 1208658012991 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1208658012992 folate binding site [chemical binding]; other site 1208658012993 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1208658012994 substrate binding site [chemical binding]; other site 1208658012995 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1208658012996 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1208658012997 active site 1208658012998 HIGH motif; other site 1208658012999 dimer interface [polypeptide binding]; other site 1208658013000 KMSKS motif; other site 1208658013001 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 1208658013002 RNA binding surface [nucleotide binding]; other site 1208658013003 putative peptidase; Provisional; Region: PRK11649 1208658013004 Peptidase family M23; Region: Peptidase_M23; pfam01551 1208658013005 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1208658013006 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1208658013007 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1208658013008 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1208658013009 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1208658013010 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 1208658013011 23S rRNA interface [nucleotide binding]; other site 1208658013012 L3 interface [polypeptide binding]; other site 1208658013013 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1208658013014 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208658013015 peptidase PmbA; Provisional; Region: PRK11040 1208658013016 Protein of unknown function (DUF615); Region: DUF615; cl01147 1208658013017 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1208658013018 putative hydrolase; Provisional; Region: PRK11460 1208658013019 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 1208658013020 NMT1/THI5 like; Region: NMT1; pfam09084 1208658013021 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208658013022 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208658013023 Walker A/P-loop; other site 1208658013024 ATP binding site [chemical binding]; other site 1208658013025 Q-loop/lid; other site 1208658013026 ABC transporter signature motif; other site 1208658013027 Walker B; other site 1208658013028 D-loop; other site 1208658013029 H-loop/switch region; other site 1208658013030 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208658013031 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658013032 dimer interface [polypeptide binding]; other site 1208658013033 conserved gate region; other site 1208658013034 putative PBP binding loops; other site 1208658013035 ABC-ATPase subunit interface; other site 1208658013036 Isochorismatase family; Region: Isochorismatase; pfam00857 1208658013037 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 1208658013038 catalytic triad [active] 1208658013039 conserved cis-peptide bond; other site 1208658013040 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 1208658013041 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208658013042 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1208658013043 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 1208658013044 ATP binding site [chemical binding]; other site 1208658013045 Mg++ binding site [ion binding]; other site 1208658013046 motif III; other site 1208658013047 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 1208658013048 nucleotide binding region [chemical binding]; other site 1208658013049 ATP-binding site [chemical binding]; other site 1208658013050 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1208658013051 putative RNA binding site [nucleotide binding]; other site 1208658013052 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658013053 DNA-binding site [nucleotide binding]; DNA binding site 1208658013054 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1208658013055 FCD domain; Region: FCD; pfam07729 1208658013056 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1208658013057 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1208658013058 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1208658013059 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1208658013060 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208658013061 Coenzyme A binding pocket [chemical binding]; other site 1208658013062 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1208658013063 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1208658013064 HIGH motif; other site 1208658013065 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1208658013066 active site 1208658013067 KMSKS motif; other site 1208658013068 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208658013069 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208658013070 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 1208658013071 putative DNA binding site [nucleotide binding]; other site 1208658013072 putative Zn2+ binding site [ion binding]; other site 1208658013073 AsnC family; Region: AsnC_trans_reg; pfam01037 1208658013074 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 1208658013075 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 1208658013076 dimer interface [polypeptide binding]; other site 1208658013077 PYR/PP interface [polypeptide binding]; other site 1208658013078 TPP binding site [chemical binding]; other site 1208658013079 substrate binding site [chemical binding]; other site 1208658013080 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 1208658013081 TPP-binding site [chemical binding]; other site 1208658013082 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 1208658013083 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1208658013084 ATP cone domain; Region: ATP-cone; pfam03477 1208658013085 ATP cone domain; Region: ATP-cone; pfam03477 1208658013086 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1208658013087 active site 1208658013088 dimer interface [polypeptide binding]; other site 1208658013089 catalytic residues [active] 1208658013090 effector binding site; other site 1208658013091 R2 peptide binding site; other site 1208658013092 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1208658013093 dimer interface [polypeptide binding]; other site 1208658013094 putative radical transfer pathway; other site 1208658013095 diiron center [ion binding]; other site 1208658013096 tyrosyl radical; other site 1208658013097 YGGT family; Region: YGGT; pfam02325 1208658013098 YGGT family; Region: YGGT; pfam02325 1208658013099 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 1208658013100 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 1208658013101 acyl-activating enzyme (AAE) consensus motif; other site 1208658013102 AMP binding site [chemical binding]; other site 1208658013103 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 1208658013104 DltD C-terminal region; Region: DltD_C; pfam04914 1208658013105 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1208658013106 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1208658013107 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1208658013108 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 1208658013109 substrate binding site [chemical binding]; other site 1208658013110 ATP binding site [chemical binding]; other site 1208658013111 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1208658013112 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1208658013113 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1208658013114 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 1208658013115 S-adenosylmethionine binding site [chemical binding]; other site 1208658013116 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1208658013117 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1208658013118 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1208658013119 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1208658013120 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1208658013121 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 1208658013122 carboxyltransferase (CT) interaction site; other site 1208658013123 biotinylation site [posttranslational modification]; other site 1208658013124 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 1208658013125 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1208658013126 trimer interface [polypeptide binding]; other site 1208658013127 active site 1208658013128 dimer interface [polypeptide binding]; other site 1208658013129 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 1208658013130 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1208658013131 catalytic residues [active] 1208658013132 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1208658013133 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1208658013134 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208658013135 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208658013136 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1208658013137 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208658013138 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 1208658013139 RNB domain; Region: RNB; pfam00773 1208658013140 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1208658013141 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1208658013142 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1208658013143 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1208658013144 shikimate binding site; other site 1208658013145 NAD(P) binding site [chemical binding]; other site 1208658013146 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1208658013147 Transglycosylase; Region: Transgly; cl17702 1208658013148 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1208658013149 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1208658013150 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1208658013151 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1208658013152 active site 1208658013153 metal binding site [ion binding]; metal-binding site 1208658013154 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1208658013155 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1208658013156 putative acyl-acceptor binding pocket; other site 1208658013157 dihydroorotase; Provisional; Region: PRK07627 1208658013158 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 1208658013159 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 1208658013160 active site 1208658013161 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1208658013162 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1208658013163 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1208658013164 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1208658013165 hypothetical protein; Validated; Region: PRK00228 1208658013166 Rubredoxin [Energy production and conversion]; Region: COG1773 1208658013167 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 1208658013168 iron binding site [ion binding]; other site 1208658013169 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 1208658013170 substrate binding site [chemical binding]; other site 1208658013171 dimer interface [polypeptide binding]; other site 1208658013172 ATP binding site [chemical binding]; other site 1208658013173 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 1208658013174 thiamine phosphate binding site [chemical binding]; other site 1208658013175 active site 1208658013176 pyrophosphate binding site [ion binding]; other site 1208658013177 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1208658013178 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 1208658013179 inhibitor-cofactor binding pocket; inhibition site 1208658013180 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658013181 catalytic residue [active] 1208658013182 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1208658013183 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1208658013184 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 1208658013185 homotrimer interaction site [polypeptide binding]; other site 1208658013186 putative active site [active] 1208658013187 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 1208658013188 active site 1208658013189 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658013190 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1208658013191 acyl-activating enzyme (AAE) consensus motif; other site 1208658013192 AMP binding site [chemical binding]; other site 1208658013193 active site 1208658013194 CoA binding site [chemical binding]; other site 1208658013195 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658013196 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658013197 active site 1208658013198 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658013199 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 1208658013200 substrate binding site [chemical binding]; other site 1208658013201 oxyanion hole (OAH) forming residues; other site 1208658013202 trimer interface [polypeptide binding]; other site 1208658013203 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208658013204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658013205 NAD(P) binding site [chemical binding]; other site 1208658013206 active site 1208658013207 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 1208658013208 hypothetical protein; Provisional; Region: PRK07236 1208658013209 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 1208658013210 active site 1208658013211 FMN binding site [chemical binding]; other site 1208658013212 substrate binding site [chemical binding]; other site 1208658013213 homotetramer interface [polypeptide binding]; other site 1208658013214 catalytic residue [active] 1208658013215 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658013216 ATP binding site [chemical binding]; other site 1208658013217 Walker A/P-loop; other site 1208658013218 ABC transporter; Region: ABC_tran; pfam00005 1208658013219 Q-loop/lid; other site 1208658013220 ABC transporter signature motif; other site 1208658013221 Walker B; other site 1208658013222 D-loop; other site 1208658013223 H-loop/switch region; other site 1208658013225 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208658013226 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 1208658013227 TM-ABC transporter signature motif; other site 1208658013228 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 1208658013229 TM-ABC transporter signature motif; other site 1208658013230 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208658013231 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 1208658013232 putative ligand binding site [chemical binding]; other site 1208658013233 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1208658013234 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 1208658013235 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1208658013236 MarR family; Region: MarR; pfam01047 1208658013237 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 1208658013238 heterotetramer interface [polypeptide binding]; other site 1208658013239 active site pocket [active] 1208658013240 cleavage site 1208658013241 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1208658013242 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 1208658013243 Walker A motif; other site 1208658013244 ATP binding site [chemical binding]; other site 1208658013245 Walker B motif; other site 1208658013246 hypothetical protein; Provisional; Region: PRK08999 1208658013247 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 1208658013248 active site 1208658013249 8-oxo-dGMP binding site [chemical binding]; other site 1208658013250 nudix motif; other site 1208658013251 metal binding site [ion binding]; metal-binding site 1208658013252 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 1208658013253 active site 1208658013254 thiamine phosphate binding site [chemical binding]; other site 1208658013255 pyrophosphate binding site [ion binding]; other site 1208658013256 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1208658013257 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1208658013258 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1208658013259 Protein export membrane protein; Region: SecD_SecF; cl14618 1208658013260 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1208658013261 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1208658013262 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208658013263 hypothetical protein; Provisional; Region: PRK05287 1208658013264 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1208658013265 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 1208658013266 CoA-binding site [chemical binding]; other site 1208658013267 ATP-binding [chemical binding]; other site 1208658013268 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1208658013269 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 1208658013270 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1208658013271 NlpE N-terminal domain; Region: NlpE; pfam04170 1208658013272 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1208658013273 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 1208658013274 DNA binding residues [nucleotide binding] 1208658013275 dimerization interface [polypeptide binding]; other site 1208658013276 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1208658013277 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1208658013278 active site 1208658013279 ATP-binding site [chemical binding]; other site 1208658013280 pantoate-binding site; other site 1208658013281 HXXH motif; other site 1208658013282 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1208658013283 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 1208658013284 putative transporter; Provisional; Region: PRK10504 1208658013285 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 1208658013286 putative substrate translocation pore; other site 1208658013287 glycerol kinase; Provisional; Region: glpK; PRK00047 1208658013288 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1208658013289 N- and C-terminal domain interface [polypeptide binding]; other site 1208658013290 active site 1208658013291 MgATP binding site [chemical binding]; other site 1208658013292 catalytic site [active] 1208658013293 metal binding site [ion binding]; metal-binding site 1208658013294 glycerol binding site [chemical binding]; other site 1208658013295 homotetramer interface [polypeptide binding]; other site 1208658013296 homodimer interface [polypeptide binding]; other site 1208658013297 FBP binding site [chemical binding]; other site 1208658013298 protein IIAGlc interface [polypeptide binding]; other site 1208658013299 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 1208658013300 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658013301 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208658013302 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208658013303 Walker A/P-loop; other site 1208658013304 ATP binding site [chemical binding]; other site 1208658013305 Q-loop/lid; other site 1208658013306 ABC transporter signature motif; other site 1208658013307 Walker B; other site 1208658013308 D-loop; other site 1208658013309 H-loop/switch region; other site 1208658013310 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658013311 dimer interface [polypeptide binding]; other site 1208658013312 conserved gate region; other site 1208658013313 putative PBP binding loops; other site 1208658013314 ABC-ATPase subunit interface; other site 1208658013315 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1208658013316 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208658013317 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658013318 dimer interface [polypeptide binding]; other site 1208658013319 conserved gate region; other site 1208658013320 putative PBP binding loops; other site 1208658013321 ABC-ATPase subunit interface; other site 1208658013322 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1208658013323 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 1208658013324 substrate binding pocket [chemical binding]; other site 1208658013325 membrane-bound complex binding site; other site 1208658013326 hinge residues; other site 1208658013327 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1208658013328 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658013329 Walker A/P-loop; other site 1208658013330 ATP binding site [chemical binding]; other site 1208658013331 Q-loop/lid; other site 1208658013332 ABC transporter signature motif; other site 1208658013333 Walker B; other site 1208658013334 D-loop; other site 1208658013335 H-loop/switch region; other site 1208658013336 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1208658013337 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 1208658013338 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1208658013339 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 1208658013340 dimer interface [polypeptide binding]; other site 1208658013341 PYR/PP interface [polypeptide binding]; other site 1208658013342 TPP binding site [chemical binding]; other site 1208658013343 substrate binding site [chemical binding]; other site 1208658013344 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 1208658013345 TPP-binding site; other site 1208658013346 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1208658013347 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1208658013348 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1208658013349 minor groove reading motif; other site 1208658013350 helix-hairpin-helix signature motif; other site 1208658013351 substrate binding pocket [chemical binding]; other site 1208658013352 active site 1208658013353 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1208658013354 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 1208658013355 DNA binding and oxoG recognition site [nucleotide binding] 1208658013356 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 1208658013357 salt bridge; other site 1208658013358 non-specific DNA binding site [nucleotide binding]; other site 1208658013359 sequence-specific DNA binding site [nucleotide binding]; other site 1208658013360 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1208658013361 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 1208658013362 S-adenosylmethionine binding site [chemical binding]; other site 1208658013363 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1208658013364 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1208658013365 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 1208658013366 substrate binding pocket [chemical binding]; other site 1208658013367 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 1208658013368 B12 binding site [chemical binding]; other site 1208658013369 cobalt ligand [ion binding]; other site 1208658013370 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1208658013371 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1208658013372 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 1208658013373 N-terminal plug; other site 1208658013374 ligand-binding site [chemical binding]; other site 1208658013375 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 1208658013376 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1208658013377 cobalamin binding residues [chemical binding]; other site 1208658013378 putative BtuC binding residues; other site 1208658013379 dimer interface [polypeptide binding]; other site 1208658013380 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 1208658013381 ThiS interaction site; other site 1208658013382 putative active site [active] 1208658013383 tetramer interface [polypeptide binding]; other site 1208658013384 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 1208658013385 dimer interface [polypeptide binding]; other site 1208658013386 substrate binding site [chemical binding]; other site 1208658013387 ATP binding site [chemical binding]; other site 1208658013388 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1208658013389 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 1208658013390 S-adenosylmethionine binding site [chemical binding]; other site 1208658013391 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1208658013392 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1208658013393 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1208658013394 active site 1208658013395 nucleotide binding site [chemical binding]; other site 1208658013396 HIGH motif; other site 1208658013397 KMSKS motif; other site 1208658013398 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1208658013399 dinuclear metal binding motif [ion binding]; other site 1208658013400 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1208658013401 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1208658013402 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1208658013403 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 1208658013404 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1208658013405 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 1208658013406 S-adenosylmethionine binding site [chemical binding]; other site 1208658013407 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1208658013408 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 1208658013409 active site 1208658013410 phosphorylation site [posttranslational modification] 1208658013411 intermolecular recognition site; other site 1208658013412 dimerization interface [polypeptide binding]; other site 1208658013413 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 1208658013414 DNA binding site [nucleotide binding] 1208658013415 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1208658013416 PAS domain; Region: PAS; smart00091 1208658013417 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 1208658013418 dimer interface [polypeptide binding]; other site 1208658013419 phosphorylation site [posttranslational modification] 1208658013420 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 1208658013421 ATP binding site [chemical binding]; other site 1208658013422 G-X-G motif; other site 1208658013423 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1208658013424 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 1208658013425 active site 1208658013426 phosphorylation site [posttranslational modification] 1208658013427 intermolecular recognition site; other site 1208658013428 dimerization interface [polypeptide binding]; other site 1208658013429 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 1208658013430 DNA binding site [nucleotide binding] 1208658013431 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1208658013432 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 1208658013433 dimerization interface [polypeptide binding]; other site 1208658013434 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 1208658013435 dimer interface [polypeptide binding]; other site 1208658013436 phosphorylation site [posttranslational modification] 1208658013437 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 1208658013438 ATP binding site [chemical binding]; other site 1208658013439 G-X-G motif; other site 1208658013440 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1208658013441 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1208658013442 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1208658013443 ligand binding site [chemical binding]; other site 1208658013444 NAD binding site [chemical binding]; other site 1208658013445 tetramer interface [polypeptide binding]; other site 1208658013446 catalytic site [active] 1208658013447 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1208658013448 L-serine binding site [chemical binding]; other site 1208658013449 ACT domain interface; other site 1208658013450 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658013451 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658013452 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 1208658013453 putative dimerization interface [polypeptide binding]; other site 1208658013454 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 1208658013455 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208658013456 putative metal binding site [ion binding]; other site 1208658013457 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1208658013458 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1208658013459 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 1208658013460 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1208658013461 putative active site [active] 1208658013462 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658013463 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658013464 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658013465 Tripartite tricarboxylate transporter family receptor; Region: TctC; pfam03401 1208658013466 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1208658013467 salicylate hydroxylase; Provisional; Region: PRK08163 1208658013468 enoyl-CoA hydratase; Provisional; Region: PRK08290 1208658013469 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 1208658013470 substrate binding site [chemical binding]; other site 1208658013471 oxyanion hole (OAH) forming residues; other site 1208658013472 trimer interface [polypeptide binding]; other site 1208658013473 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 1208658013474 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1208658013475 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658013476 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658013477 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658013478 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658013479 DNA-binding site [nucleotide binding]; DNA binding site 1208658013480 FCD domain; Region: FCD; pfam07729 1208658013481 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 1208658013482 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1208658013483 FAD binding domain; Region: FAD_binding_4; pfam01565 1208658013484 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1208658013485 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 1208658013486 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1208658013487 Cysteine-rich domain; Region: CCG; pfam02754 1208658013488 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 1208658013489 Predicted membrane protein [Function unknown]; Region: COG1238 1208658013490 threonine dehydratase; Reviewed; Region: PRK09224 1208658013491 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 1208658013492 tetramer interface [polypeptide binding]; other site 1208658013493 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658013494 catalytic residue [active] 1208658013495 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1208658013496 putative Ile/Val binding site [chemical binding]; other site 1208658013497 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1208658013498 putative Ile/Val binding site [chemical binding]; other site 1208658013499 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1208658013500 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 1208658013501 trimer interface [polypeptide binding]; other site 1208658013502 eyelet of channel; other site 1208658013503 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1208658013504 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658013505 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658013506 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 1208658013507 putative effector binding pocket; other site 1208658013508 dimerization interface [polypeptide binding]; other site 1208658013509 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1208658013510 active site 1208658013511 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658013512 Walker A/P-loop; other site 1208658013513 ATP binding site [chemical binding]; other site 1208658013514 ABC transporter; Region: ABC_tran; pfam00005 1208658013515 Q-loop/lid; other site 1208658013516 ABC transporter signature motif; other site 1208658013517 Walker B; other site 1208658013518 D-loop; other site 1208658013519 H-loop/switch region; other site 1208658013520 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 1208658013521 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1208658013522 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658013523 Walker A/P-loop; other site 1208658013524 ATP binding site [chemical binding]; other site 1208658013525 Q-loop/lid; other site 1208658013526 ABC transporter signature motif; other site 1208658013527 Walker B; other site 1208658013528 D-loop; other site 1208658013529 H-loop/switch region; other site 1208658013530 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 1208658013531 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1208658013532 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1208658013533 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1208658013534 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1208658013535 Predicted transcriptional regulators [Transcription]; Region: COG1510 1208658013536 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 1208658013537 dimerization interface [polypeptide binding]; other site 1208658013538 putative DNA binding site [nucleotide binding]; other site 1208658013539 putative Zn2+ binding site [ion binding]; other site 1208658013540 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1208658013541 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 1208658013542 N-terminal plug; other site 1208658013543 ligand-binding site [chemical binding]; other site 1208658013544 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1208658013545 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658013546 ATP-grasp domain; Region: ATP-grasp; pfam02222 1208658013547 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1208658013548 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 1208658013549 putative active site [active] 1208658013550 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 1208658013551 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1208658013552 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 1208658013553 active site 1208658013554 motif I; other site 1208658013555 motif II; other site 1208658013556 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 1208658013557 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1208658013558 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1208658013559 OstA-like protein; Region: OstA; pfam03968 1208658013560 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1208658013561 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1208658013562 Walker A/P-loop; other site 1208658013563 ATP binding site [chemical binding]; other site 1208658013564 Q-loop/lid; other site 1208658013565 ABC transporter signature motif; other site 1208658013566 Walker B; other site 1208658013567 D-loop; other site 1208658013568 H-loop/switch region; other site 1208658013569 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 1208658013570 30S subunit binding site; other site 1208658013571 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 1208658013572 active site 1208658013573 phosphorylation site [posttranslational modification] 1208658013574 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1208658013575 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1208658013576 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 1208658013577 Hpr binding site; other site 1208658013578 active site 1208658013579 homohexamer subunit interaction site [polypeptide binding]; other site 1208658013580 Cytochrome c; Region: Cytochrom_C; pfam00034 1208658013581 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1208658013582 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1208658013583 Cytochrome c; Region: Cytochrom_C; pfam00034 1208658013584 Cytochrome c; Region: Cytochrom_C; cl11414 1208658013585 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1208658013586 Cytochrome c; Region: Cytochrom_C; cl11414 1208658013587 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1208658013588 AAA domain; Region: AAA_18; pfam13238 1208658013589 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1208658013590 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1208658013591 Sporulation related domain; Region: SPOR; pfam05036 1208658013592 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1208658013593 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1208658013594 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 1208658013595 DNA binding site [nucleotide binding] 1208658013596 active site 1208658013597 Predicted methyltransferases [General function prediction only]; Region: COG0313 1208658013598 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1208658013599 putative SAM binding site [chemical binding]; other site 1208658013600 putative homodimer interface [polypeptide binding]; other site 1208658013601 hypothetical protein; Provisional; Region: PRK14685 1208658013602 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 1208658013603 active site 1208658013604 dimer interface [polypeptide binding]; other site 1208658013605 outer membrane lipoprotein; Provisional; Region: PRK11023 1208658013606 BON domain; Region: BON; pfam04972 1208658013607 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 1208658013608 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1208658013609 catalytic residues [active] 1208658013610 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1208658013611 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1208658013612 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 1208658013613 feedback inhibition sensing region; other site 1208658013614 homohexameric interface [polypeptide binding]; other site 1208658013615 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1208658013616 nucleotide binding site [chemical binding]; other site 1208658013617 N-acetyl-L-glutamate binding site [chemical binding]; other site 1208658013618 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 1208658013619 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 1208658013620 motif II; other site 1208658013621 division inhibitor protein; Provisional; Region: slmA; PRK09480 1208658013622 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658013623 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 1208658013624 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1208658013625 transmembrane helices; other site 1208658013626 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1208658013627 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1208658013628 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1208658013629 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1208658013630 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1208658013631 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 1208658013632 rod shape-determining protein MreC; Provisional; Region: PRK13922 1208658013633 rod shape-determining protein MreC; Region: MreC; pfam04085 1208658013634 rod shape-determining protein MreB; Provisional; Region: PRK13927 1208658013635 MreB and similar proteins; Region: MreB_like; cd10225 1208658013636 nucleotide binding site [chemical binding]; other site 1208658013637 Mg binding site [ion binding]; other site 1208658013638 putative protofilament interaction site [polypeptide binding]; other site 1208658013639 RodZ interaction site [polypeptide binding]; other site 1208658013640 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1208658013641 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208658013642 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1208658013643 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1208658013644 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1208658013645 GatB domain; Region: GatB_Yqey; smart00845 1208658013646 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1208658013647 active site 1208658013648 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1208658013649 putative active site [active] 1208658013650 putative catalytic site [active] 1208658013651 putative DNA binding site [nucleotide binding]; other site 1208658013652 putative phosphate binding site [ion binding]; other site 1208658013653 metal binding site A [ion binding]; metal-binding site 1208658013654 putative AP binding site [nucleotide binding]; other site 1208658013655 putative metal binding site B [ion binding]; other site 1208658013656 glutamate dehydrogenase; Provisional; Region: PRK09414 1208658013657 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1208658013658 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1208658013659 NAD(P) binding site [chemical binding]; other site 1208658013660 Predicted membrane protein [Function unknown]; Region: COG2860 1208658013661 UPF0126 domain; Region: UPF0126; pfam03458 1208658013662 UPF0126 domain; Region: UPF0126; pfam03458 1208658013663 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 1208658013664 Ligand Binding Site [chemical binding]; other site 1208658013665 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 1208658013666 Ligand Binding Site [chemical binding]; other site 1208658013667 transcriptional activator TtdR; Provisional; Region: PRK09801 1208658013668 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658013669 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 1208658013670 putative effector binding pocket; other site 1208658013671 putative dimerization interface [polypeptide binding]; other site 1208658013672 tartrate dehydrogenase; Region: TTC; TIGR02089 1208658013673 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1208658013674 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1208658013675 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1208658013676 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1208658013677 Domain of unknown function (DUF305); Region: DUF305; pfam03713 1208658013678 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1208658013679 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 1208658013680 active site 1208658013681 phosphorylation site [posttranslational modification] 1208658013682 intermolecular recognition site; other site 1208658013683 dimerization interface [polypeptide binding]; other site 1208658013684 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 1208658013685 DNA binding site [nucleotide binding] 1208658013686 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1208658013687 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 1208658013688 dimerization interface [polypeptide binding]; other site 1208658013689 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 1208658013690 dimer interface [polypeptide binding]; other site 1208658013691 phosphorylation site [posttranslational modification] 1208658013692 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 1208658013693 ATP binding site [chemical binding]; other site 1208658013694 G-X-G motif; other site 1208658013695 cell density-dependent motility repressor; Provisional; Region: PRK10082 1208658013696 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658013697 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 1208658013698 dimerization interface [polypeptide binding]; other site 1208658013699 D-cysteine desulfhydrase; Validated; Region: PRK03910 1208658013700 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 1208658013701 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208658013702 catalytic residue [active] 1208658013703 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 1208658013704 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1208658013705 substrate binding pocket [chemical binding]; other site 1208658013706 membrane-bound complex binding site; other site 1208658013707 hinge residues; other site 1208658013708 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658013709 dimer interface [polypeptide binding]; other site 1208658013710 conserved gate region; other site 1208658013711 putative PBP binding loops; other site 1208658013712 ABC-ATPase subunit interface; other site 1208658013713 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1208658013714 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658013715 dimer interface [polypeptide binding]; other site 1208658013716 conserved gate region; other site 1208658013717 putative PBP binding loops; other site 1208658013718 ABC-ATPase subunit interface; other site 1208658013719 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208658013720 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208658013721 Walker A/P-loop; other site 1208658013722 ATP binding site [chemical binding]; other site 1208658013723 Q-loop/lid; other site 1208658013724 ABC transporter signature motif; other site 1208658013725 Walker B; other site 1208658013726 D-loop; other site 1208658013727 H-loop/switch region; other site 1208658013728 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1208658013729 aspartate racemase; Region: asp_race; TIGR00035 1208658013730 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1208658013731 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 1208658013732 trimer interface [polypeptide binding]; other site 1208658013733 eyelet of channel; other site 1208658013734 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1208658013735 muropeptide transporter; Validated; Region: ampG; cl17669 1208658013736 methionine biosynthesis protein MetW; Region: metW; TIGR02081 1208658013737 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1208658013738 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1208658013739 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1208658013740 Membrane transport protein; Region: Mem_trans; cl09117 1208658013741 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 1208658013742 DNA binding residues [nucleotide binding] 1208658013743 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208658013744 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1208658013745 Serine hydrolase; Region: Ser_hydrolase; cl17834 1208658013746 glutamate--cysteine ligase; Provisional; Region: PRK02107 1208658013747 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1208658013748 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1208658013749 active site 1208658013750 Zn binding site [ion binding]; other site 1208658013751 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208658013752 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658013753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658013754 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 1208658013755 dimerization interface [polypeptide binding]; other site 1208658013756 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 1208658013757 active site 1208658013758 oligomerization interface [polypeptide binding]; other site 1208658013759 metal binding site [ion binding]; metal-binding site 1208658013760 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1208658013761 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 1208658013762 trimer interface [polypeptide binding]; other site 1208658013763 eyelet of channel; other site 1208658013764 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1208658013765 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1208658013766 DNA binding site [nucleotide binding] 1208658013767 domain linker motif; other site 1208658013768 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_7; cd06285 1208658013769 putative dimerization interface [polypeptide binding]; other site 1208658013770 putative ligand binding site [chemical binding]; other site 1208658013771 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658013772 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 1208658013773 TM-ABC transporter signature motif; other site 1208658013774 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658013775 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 1208658013776 TM-ABC transporter signature motif; other site 1208658013777 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658013778 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658013779 Walker A/P-loop; other site 1208658013780 ATP binding site [chemical binding]; other site 1208658013781 Q-loop/lid; other site 1208658013782 ABC transporter signature motif; other site 1208658013783 Walker B; other site 1208658013784 D-loop; other site 1208658013785 H-loop/switch region; other site 1208658013786 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658013787 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658013788 Walker A/P-loop; other site 1208658013789 ATP binding site [chemical binding]; other site 1208658013790 Q-loop/lid; other site 1208658013791 ABC transporter signature motif; other site 1208658013792 Walker B; other site 1208658013793 D-loop; other site 1208658013794 H-loop/switch region; other site 1208658013795 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208658013796 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1208658013797 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208658013798 Amidase; Region: Amidase; pfam01425 1208658013799 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1208658013800 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658013801 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658013802 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658013803 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658013804 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658013805 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658013806 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 1208658013807 substrate binding site [chemical binding]; other site 1208658013808 oxyanion hole (OAH) forming residues; other site 1208658013809 trimer interface [polypeptide binding]; other site 1208658013810 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1208658013811 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1208658013812 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1208658013813 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1208658013814 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1208658013815 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1208658013816 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1208658013817 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1208658013818 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1208658013819 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1208658013820 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1208658013821 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208658013822 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208658013823 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658013824 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658013825 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658013826 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658013827 active site 1208658013828 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658013829 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658013830 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1208658013831 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 1208658013832 FMN binding site [chemical binding]; other site 1208658013833 substrate binding site [chemical binding]; other site 1208658013834 putative catalytic residue [active] 1208658013835 enoyl-CoA hydratase; Provisional; Region: PRK06688 1208658013836 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 1208658013837 substrate binding site [chemical binding]; other site 1208658013838 oxyanion hole (OAH) forming residues; other site 1208658013839 trimer interface [polypeptide binding]; other site 1208658013840 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 1208658013841 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658013842 substrate binding site [chemical binding]; other site 1208658013843 oxyanion hole (OAH) forming residues; other site 1208658013844 trimer interface [polypeptide binding]; other site 1208658013845 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 1208658013846 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 1208658013847 putative ATP binding site [chemical binding]; other site 1208658013848 putative substrate binding site [chemical binding]; other site 1208658013849 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 1208658013850 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1208658013851 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 1208658013852 putative active site [active] 1208658013853 Zn binding site [ion binding]; other site 1208658013854 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208658013855 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658013856 dimer interface [polypeptide binding]; other site 1208658013857 conserved gate region; other site 1208658013858 putative PBP binding loops; other site 1208658013859 ABC-ATPase subunit interface; other site 1208658013860 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1208658013861 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658013862 dimer interface [polypeptide binding]; other site 1208658013863 conserved gate region; other site 1208658013864 putative PBP binding loops; other site 1208658013865 ABC-ATPase subunit interface; other site 1208658013866 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1208658013867 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658013868 Walker A/P-loop; other site 1208658013869 ATP binding site [chemical binding]; other site 1208658013870 Q-loop/lid; other site 1208658013871 ABC transporter signature motif; other site 1208658013872 Walker B; other site 1208658013873 D-loop; other site 1208658013874 H-loop/switch region; other site 1208658013875 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1208658013876 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1208658013877 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658013878 Walker A/P-loop; other site 1208658013879 ATP binding site [chemical binding]; other site 1208658013880 Q-loop/lid; other site 1208658013881 ABC transporter signature motif; other site 1208658013882 Walker B; other site 1208658013883 D-loop; other site 1208658013884 H-loop/switch region; other site 1208658013885 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1208658013886 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 1208658013887 hypothetical protein; Provisional; Region: PRK07338 1208658013888 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 1208658013889 metal binding site [ion binding]; metal-binding site 1208658013890 dimer interface [polypeptide binding]; other site 1208658013891 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1208658013892 Part of AAA domain; Region: AAA_19; pfam13245 1208658013893 Family description; Region: UvrD_C_2; pfam13538 1208658013894 primosome assembly protein PriA; Validated; Region: PRK05580 1208658013895 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 1208658013896 ATP binding site [chemical binding]; other site 1208658013897 putative Mg++ binding site [ion binding]; other site 1208658013898 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1208658013899 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 1208658013900 substrate binding site [chemical binding]; other site 1208658013901 active site 1208658013902 response regulator GlrR; Provisional; Region: PRK15115 1208658013903 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1208658013904 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1208658013905 gamma subunit interface [polypeptide binding]; other site 1208658013906 epsilon subunit interface [polypeptide binding]; other site 1208658013907 LBP interface [polypeptide binding]; other site 1208658013908 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1208658013909 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1208658013910 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 1208658013911 alpha subunit interaction interface [polypeptide binding]; other site 1208658013912 Walker A motif; other site 1208658013913 ATP binding site [chemical binding]; other site 1208658013914 Walker B motif; other site 1208658013915 inhibitor binding site; inhibition site 1208658013916 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1208658013917 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1208658013918 core domain interface [polypeptide binding]; other site 1208658013919 delta subunit interface [polypeptide binding]; other site 1208658013920 epsilon subunit interface [polypeptide binding]; other site 1208658013921 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1208658013922 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1208658013923 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 1208658013924 beta subunit interaction interface [polypeptide binding]; other site 1208658013925 Walker A motif; other site 1208658013926 ATP binding site [chemical binding]; other site 1208658013927 Walker B motif; other site 1208658013928 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1208658013929 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1208658013930 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1208658013931 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1208658013932 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1208658013933 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1208658013934 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1208658013935 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1208658013936 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1208658013937 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1208658013938 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1208658013939 enoyl-CoA hydratase; Provisional; Region: PRK05862 1208658013940 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 1208658013941 substrate binding site [chemical binding]; other site 1208658013942 oxyanion hole (OAH) forming residues; other site 1208658013943 trimer interface [polypeptide binding]; other site 1208658013944 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1208658013945 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1208658013946 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 1208658013947 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1208658013948 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1208658013949 Dihydroneopterin aldolase; Region: FolB; pfam02152 1208658013950 active site 1208658013951 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1208658013952 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 1208658013953 Ligand Binding Site [chemical binding]; other site 1208658013954 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1208658013955 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 1208658013956 dimerization interface [polypeptide binding]; other site 1208658013957 NAD binding site [chemical binding]; other site 1208658013958 ligand binding site [chemical binding]; other site 1208658013959 catalytic site [active] 1208658013960 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 1208658013961 dimerization domain [polypeptide binding]; other site 1208658013962 dimer interface [polypeptide binding]; other site 1208658013963 catalytic residues [active] 1208658013964 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 1208658013965 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1208658013966 MltA specific insert domain; Region: MltA; smart00925 1208658013967 3D domain; Region: 3D; pfam06725 1208658013968 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1208658013969 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 1208658013970 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1208658013971 substrate binding site [chemical binding]; other site 1208658013972 hexamer interface [polypeptide binding]; other site 1208658013973 metal binding site [ion binding]; metal-binding site 1208658013974 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1208658013975 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 1208658013976 motif II; other site 1208658013977 anthranilate synthase component I; Provisional; Region: PRK13565 1208658013978 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1208658013979 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1208658013980 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1208658013981 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1208658013982 glutamine binding [chemical binding]; other site 1208658013983 catalytic triad [active] 1208658013984 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1208658013985 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1208658013986 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1208658013987 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 1208658013988 active site 1208658013989 ribulose/triose binding site [chemical binding]; other site 1208658013990 phosphate binding site [ion binding]; other site 1208658013991 substrate (anthranilate) binding pocket [chemical binding]; other site 1208658013992 product (indole) binding pocket [chemical binding]; other site 1208658013993 short chain dehydrogenase; Provisional; Region: PRK06123 1208658013994 classical (c) SDRs; Region: SDR_c; cd05233 1208658013995 NAD(P) binding site [chemical binding]; other site 1208658013996 active site 1208658013997 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1208658013998 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 1208658013999 putative catalytic residue [active] 1208658014000 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 1208658014001 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1208658014002 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658014003 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 1208658014004 dimerization interface [polypeptide binding]; other site 1208658014005 substrate binding pocket [chemical binding]; other site 1208658014006 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1208658014007 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1208658014008 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1208658014009 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1208658014010 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 1208658014011 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1208658014012 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1208658014013 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1208658014014 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1208658014015 NodB motif; other site 1208658014016 active site 1208658014017 catalytic site [active] 1208658014018 metal binding site [ion binding]; metal-binding site 1208658014019 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1208658014020 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1208658014021 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1208658014022 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 1208658014023 substrate binding pocket [chemical binding]; other site 1208658014024 membrane-bound complex binding site; other site 1208658014025 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1208658014026 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1208658014027 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1208658014028 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1208658014029 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 1208658014030 catalytic loop [active] 1208658014031 iron binding site [ion binding]; other site 1208658014032 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 1208658014033 FAD binding pocket [chemical binding]; other site 1208658014034 FAD binding motif [chemical binding]; other site 1208658014035 phosphate binding motif [ion binding]; other site 1208658014036 beta-alpha-beta structure motif; other site 1208658014037 NAD binding pocket [chemical binding]; other site 1208658014038 Domain of unknown function (DUF336); Region: DUF336; pfam03928 1208658014039 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1208658014040 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208658014041 NAD(P) binding site [chemical binding]; other site 1208658014042 catalytic residues [active] 1208658014043 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1208658014044 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1208658014045 SepZ; Region: SepZ; pfam06066 1208658014046 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658014047 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658014048 DNA-binding site [nucleotide binding]; DNA binding site 1208658014049 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1208658014050 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1208658014051 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1208658014052 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1208658014053 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 1208658014054 catalytic loop [active] 1208658014055 iron binding site [ion binding]; other site 1208658014056 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1208658014057 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 1208658014058 catalytic loop [active] 1208658014059 iron binding site [ion binding]; other site 1208658014060 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 1208658014061 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208658014062 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1208658014063 DNA binding residues [nucleotide binding] 1208658014064 fec operon regulator FecR; Reviewed; Region: PRK09774 1208658014065 FecR protein; Region: FecR; pfam04773 1208658014066 Secretin and TonB N terminus short domain; Region: STN; smart00965 1208658014067 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1208658014068 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 1208658014069 N-terminal plug; other site 1208658014070 ligand-binding site [chemical binding]; other site 1208658014071 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1208658014072 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1208658014073 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1208658014074 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1208658014075 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1208658014076 intersubunit interface [polypeptide binding]; other site 1208658014077 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 1208658014078 ABC-ATPase subunit interface; other site 1208658014079 dimer interface [polypeptide binding]; other site 1208658014080 putative PBP binding regions; other site 1208658014081 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1208658014082 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1208658014083 Walker A/P-loop; other site 1208658014084 ATP binding site [chemical binding]; other site 1208658014085 Q-loop/lid; other site 1208658014086 ABC transporter signature motif; other site 1208658014087 Walker B; other site 1208658014088 D-loop; other site 1208658014089 H-loop/switch region; other site 1208658014090 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1208658014091 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 1208658014092 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1208658014093 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1208658014094 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 1208658014095 DNA binding site [nucleotide binding] 1208658014096 active site 1208658014097 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208658014098 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208658014099 metal binding site [ion binding]; metal-binding site 1208658014100 active site 1208658014101 I-site; other site 1208658014102 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1208658014103 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1208658014104 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658014105 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658014106 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 1208658014107 dimerization interface [polypeptide binding]; other site 1208658014108 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658014109 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1208658014113 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1208658014114 Beta-lactamase; Region: Beta-lactamase; pfam00144 1208658014115 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 1208658014116 homodimer interface [polypeptide binding]; other site 1208658014117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658014118 catalytic residue [active] 1208658014119 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208658014120 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658014121 DNA-binding site [nucleotide binding]; DNA binding site 1208658014122 FCD domain; Region: FCD; pfam07729 1208658014123 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 1208658014124 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1208658014125 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 1208658014126 Subunit I/III interface [polypeptide binding]; other site 1208658014127 D-pathway; other site 1208658014128 Subunit I/VIIc interface [polypeptide binding]; other site 1208658014129 Subunit I/IV interface [polypeptide binding]; other site 1208658014130 Subunit I/II interface [polypeptide binding]; other site 1208658014131 Low-spin heme (heme a) binding site [chemical binding]; other site 1208658014132 Subunit I/VIIa interface [polypeptide binding]; other site 1208658014133 Subunit I/VIa interface [polypeptide binding]; other site 1208658014134 Dimer interface; other site 1208658014135 Putative water exit pathway; other site 1208658014136 Binuclear center (heme a3/CuB) [ion binding]; other site 1208658014137 K-pathway; other site 1208658014138 Subunit I/Vb interface [polypeptide binding]; other site 1208658014139 Putative proton exit pathway; other site 1208658014140 Subunit I/VIb interface; other site 1208658014141 Subunit I/VIc interface [polypeptide binding]; other site 1208658014142 Electron transfer pathway; other site 1208658014143 Subunit I/VIIIb interface [polypeptide binding]; other site 1208658014144 Subunit I/VIIb interface [polypeptide binding]; other site 1208658014145 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658014146 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1208658014147 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658014148 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1208658014149 substrate binding pocket [chemical binding]; other site 1208658014150 dimerization interface [polypeptide binding]; other site 1208658014151 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1208658014152 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 1208658014153 motif II; other site 1208658014154 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658014155 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658014156 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 1208658014157 CoenzymeA binding site [chemical binding]; other site 1208658014158 subunit interaction site [polypeptide binding]; other site 1208658014159 PHB binding site; other site 1208658014160 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658014161 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1208658014162 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658014163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658014164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658014165 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1208658014166 putative dimerization interface [polypeptide binding]; other site 1208658014167 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208658014168 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658014169 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658014170 putative succinate dehydrogenase; Reviewed; Region: PRK12842 1208658014171 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1208658014172 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1208658014173 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658014174 Amidohydrolase; Region: Amidohydro_2; pfam04909 1208658014175 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208658014176 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208658014177 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1208658014178 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1208658014179 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208658014180 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1208658014181 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208658014182 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208658014183 Walker A/P-loop; other site 1208658014184 ATP binding site [chemical binding]; other site 1208658014185 Q-loop/lid; other site 1208658014186 ABC transporter signature motif; other site 1208658014187 Walker B; other site 1208658014188 D-loop; other site 1208658014189 H-loop/switch region; other site 1208658014190 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658014191 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 1208658014192 TM-ABC transporter signature motif; other site 1208658014193 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208658014194 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208658014195 Walker A/P-loop; other site 1208658014196 ATP binding site [chemical binding]; other site 1208658014197 Q-loop/lid; other site 1208658014198 ABC transporter signature motif; other site 1208658014199 Walker B; other site 1208658014200 D-loop; other site 1208658014201 H-loop/switch region; other site 1208658014202 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208658014203 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 1208658014204 TM-ABC transporter signature motif; other site 1208658014205 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208658014206 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1208658014207 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1208658014208 acyl-CoA synthetase; Validated; Region: PRK06145 1208658014209 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208658014210 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1208658014211 acyl-activating enzyme (AAE) consensus motif; other site 1208658014212 acyl-activating enzyme (AAE) consensus motif; other site 1208658014213 putative AMP binding site [chemical binding]; other site 1208658014214 putative active site [active] 1208658014215 putative CoA binding site [chemical binding]; other site 1208658014216 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658014217 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658014218 active site 1208658014219 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1208658014220 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 1208658014221 E3 interaction surface; other site 1208658014222 lipoyl attachment site [posttranslational modification]; other site 1208658014223 e3 binding domain; Region: E3_binding; pfam02817 1208658014224 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1208658014225 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658014226 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 1208658014227 substrate binding site [chemical binding]; other site 1208658014228 oxyanion hole (OAH) forming residues; other site 1208658014229 trimer interface [polypeptide binding]; other site 1208658014230 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1208658014231 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1208658014232 alpha subunit interface [polypeptide binding]; other site 1208658014233 TPP binding site [chemical binding]; other site 1208658014234 heterodimer interface [polypeptide binding]; other site 1208658014235 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1208658014236 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1208658014237 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1208658014238 tetramer interface [polypeptide binding]; other site 1208658014239 TPP-binding site [chemical binding]; other site 1208658014240 heterodimer interface [polypeptide binding]; other site 1208658014241 phosphorylation loop region [posttranslational modification] 1208658014242 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1208658014243 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1208658014244 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1208658014245 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658014246 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208658014247 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658014248 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658014249 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 1208658014250 substrate binding site [chemical binding]; other site 1208658014251 oxyanion hole (OAH) forming residues; other site 1208658014252 trimer interface [polypeptide binding]; other site 1208658014253 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1208658014254 CoA binding domain; Region: CoA_binding_2; pfam13380 1208658014255 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1208658014256 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1208658014257 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658014258 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658014259 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658014260 active site 1208658014261 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658014262 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 1208658014263 substrate binding site [chemical binding]; other site 1208658014264 oxyanion hole (OAH) forming residues; other site 1208658014265 trimer interface [polypeptide binding]; other site 1208658014266 thiolase; Provisional; Region: PRK06158 1208658014267 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1208658014268 active site 1208658014269 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 1208658014270 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1208658014271 DUF35 OB-fold domain; Region: DUF35; pfam01796 1208658014272 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 1208658014273 active site 2 [active] 1208658014274 active site 1 [active] 1208658014275 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658014276 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658014277 active site 1208658014278 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658014279 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658014280 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658014281 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1208658014282 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658014283 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 1208658014284 putative dimerization interface [polypeptide binding]; other site 1208658014285 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1208658014286 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1208658014287 inhibitor site; inhibition site 1208658014288 active site 1208658014289 dimer interface [polypeptide binding]; other site 1208658014290 catalytic residue [active] 1208658014291 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1208658014292 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208658014293 DNA-binding site [nucleotide binding]; DNA binding site 1208658014294 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1208658014295 aspartate aminotransferase; Provisional; Region: PRK05764 1208658014296 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 1208658014297 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658014298 homodimer interface [polypeptide binding]; other site 1208658014299 catalytic residue [active] 1208658014300 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1208658014301 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1208658014302 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1208658014303 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1208658014304 putative active site [active] 1208658014305 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1208658014306 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 1208658014307 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208658014308 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658014309 dimer interface [polypeptide binding]; other site 1208658014310 conserved gate region; other site 1208658014311 putative PBP binding loops; other site 1208658014312 ABC-ATPase subunit interface; other site 1208658014313 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1208658014314 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658014315 dimer interface [polypeptide binding]; other site 1208658014316 conserved gate region; other site 1208658014317 putative PBP binding loops; other site 1208658014318 ABC-ATPase subunit interface; other site 1208658014319 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1208658014320 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658014321 Walker A/P-loop; other site 1208658014322 ATP binding site [chemical binding]; other site 1208658014323 Q-loop/lid; other site 1208658014324 ABC transporter signature motif; other site 1208658014325 Walker B; other site 1208658014326 D-loop; other site 1208658014327 H-loop/switch region; other site 1208658014328 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1208658014329 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658014330 Walker A/P-loop; other site 1208658014331 ATP binding site [chemical binding]; other site 1208658014332 Q-loop/lid; other site 1208658014333 ABC transporter signature motif; other site 1208658014334 Walker B; other site 1208658014335 D-loop; other site 1208658014336 H-loop/switch region; other site 1208658014337 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208658014338 allantoate amidohydrolase; Reviewed; Region: PRK12891 1208658014339 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1208658014340 active site 1208658014341 metal binding site [ion binding]; metal-binding site 1208658014342 dimer interface [polypeptide binding]; other site 1208658014343 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1208658014344 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1208658014345 ligand binding site [chemical binding]; other site 1208658014346 NAD binding site [chemical binding]; other site 1208658014347 dimerization interface [polypeptide binding]; other site 1208658014348 catalytic site [active] 1208658014349 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1208658014350 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 1208658014351 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 1208658014352 carboxyltransferase (CT) interaction site; other site 1208658014353 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1208658014354 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 1208658014355 carboxyltransferase (CT) interaction site; other site 1208658014356 biotinylation site [posttranslational modification]; other site 1208658014357 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1208658014358 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1208658014359 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1208658014360 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1208658014361 aspartate aminotransferase; Provisional; Region: PRK06207 1208658014362 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 1208658014363 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658014364 homodimer interface [polypeptide binding]; other site 1208658014365 catalytic residue [active] 1208658014366 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 1208658014367 homotrimer interaction site [polypeptide binding]; other site 1208658014368 putative active site [active] 1208658014369 selenophosphate synthetase; Provisional; Region: PRK00943 1208658014370 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 1208658014371 dimerization interface [polypeptide binding]; other site 1208658014372 putative ATP binding site [chemical binding]; other site 1208658014373 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1208658014374 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 1208658014375 active site residue [active] 1208658014376 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1208658014377 RNA polymerase factor sigma-70; Validated; Region: PRK09047 1208658014378 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 1208658014379 DNA binding residues [nucleotide binding] 1208658014380 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1208658014381 FecR protein; Region: FecR; pfam04773 1208658014382 Secretin and TonB N terminus short domain; Region: STN; smart00965 1208658014383 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1208658014384 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 1208658014385 N-terminal plug; other site 1208658014386 ligand-binding site [chemical binding]; other site 1208658014387 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 1208658014388 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1208658014389 CoenzymeA binding site [chemical binding]; other site 1208658014390 subunit interaction site [polypeptide binding]; other site 1208658014391 PHB binding site; other site 1208658014392 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658014393 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658014394 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658014395 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208658014396 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658014397 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 1208658014398 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1208658014399 NADP binding site [chemical binding]; other site 1208658014400 dimer interface [polypeptide binding]; other site 1208658014401 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658014402 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase; Region: benzo_BadH; TIGR03206 1208658014403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658014404 NAD(P) binding site [chemical binding]; other site 1208658014405 active site 1208658014406 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 1208658014407 active site 2 [active] 1208658014408 active site 1 [active] 1208658014409 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208658014410 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208658014411 active site 1208658014412 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658014413 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658014414 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658014415 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 1208658014416 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 1208658014417 substrate binding site [chemical binding]; other site 1208658014418 oxyanion hole (OAH) forming residues; other site 1208658014419 trimer interface [polypeptide binding]; other site 1208658014420 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1208658014421 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 1208658014422 active site 1208658014423 FMN binding site [chemical binding]; other site 1208658014424 2,4-decadienoyl-CoA binding site; other site 1208658014425 catalytic residue [active] 1208658014426 4Fe-4S cluster binding site [ion binding]; other site 1208658014427 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1208658014428 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1208658014429 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208658014430 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 1208658014431 substrate binding site [chemical binding]; other site 1208658014432 oxyanion hole (OAH) forming residues; other site 1208658014433 trimer interface [polypeptide binding]; other site 1208658014434 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1208658014435 MarR family; Region: MarR_2; cl17246 1208658014436 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 1208658014437 Ligand binding site [chemical binding]; other site 1208658014438 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1208658014439 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1208658014440 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1208658014441 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1208658014442 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1208658014443 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 1208658014444 N-terminal plug; other site 1208658014445 ligand-binding site [chemical binding]; other site 1208658014446 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658014447 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1208658014448 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1208658014449 active site 1208658014450 catalytic site [active] 1208658014451 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1208658014452 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658014453 NAD(P) binding site [chemical binding]; other site 1208658014454 active site 1208658014455 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658014456 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658014457 lipid-transfer protein; Provisional; Region: PRK08256 1208658014458 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1208658014459 active site 1208658014460 enoyl-CoA hydratase; Region: PLN02864 1208658014461 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 1208658014462 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 1208658014463 dimer interaction site [polypeptide binding]; other site 1208658014464 substrate-binding tunnel; other site 1208658014465 active site 1208658014466 catalytic site [active] 1208658014467 substrate binding site [chemical binding]; other site 1208658014468 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658014469 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658014470 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658014471 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658014472 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 1208658014473 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208658014474 putative active site [active] 1208658014475 putative metal binding site [ion binding]; other site 1208658014476 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1208658014477 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208658014478 active site 1208658014479 metal binding site [ion binding]; metal-binding site 1208658014480 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1208658014481 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1208658014482 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1208658014483 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 1208658014484 FMN-binding pocket [chemical binding]; other site 1208658014485 flavin binding motif; other site 1208658014486 phosphate binding motif [ion binding]; other site 1208658014487 beta-alpha-beta structure motif; other site 1208658014488 NAD binding pocket [chemical binding]; other site 1208658014489 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 1208658014490 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1208658014491 catalytic loop [active] 1208658014492 iron binding site [ion binding]; other site 1208658014493 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 1208658014494 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1208658014495 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1208658014496 hydrophobic ligand binding site; other site 1208658014497 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1208658014498 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1208658014499 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1208658014500 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658014501 dimer interface [polypeptide binding]; other site 1208658014502 conserved gate region; other site 1208658014503 putative PBP binding loops; other site 1208658014504 ABC-ATPase subunit interface; other site 1208658014505 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658014506 dimer interface [polypeptide binding]; other site 1208658014507 conserved gate region; other site 1208658014508 putative PBP binding loops; other site 1208658014509 ABC-ATPase subunit interface; other site 1208658014510 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1208658014511 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1208658014512 Walker A/P-loop; other site 1208658014513 ATP binding site [chemical binding]; other site 1208658014514 Q-loop/lid; other site 1208658014515 ABC transporter signature motif; other site 1208658014516 Walker B; other site 1208658014517 D-loop; other site 1208658014518 H-loop/switch region; other site 1208658014519 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1208658014520 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1208658014521 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1208658014522 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1208658014524 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208658014525 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1208658014526 putative NAD(P) binding site [chemical binding]; other site 1208658014527 putative active site [active] 1208658014528 putative L-aspartate dehydrogenase; Provisional; Region: PRK13302 1208658014529 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1208658014530 Domain of unknown function DUF108; Region: DUF108; pfam01958 1208658014531 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208658014532 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658014533 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 1208658014534 dimerization interface [polypeptide binding]; other site 1208658014535 substrate binding pocket [chemical binding]; other site 1208658014536 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 1208658014537 substrate binding site [chemical binding]; other site 1208658014538 Protein of unknown function (DUF521); Region: DUF521; pfam04412 1208658014539 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 1208658014540 substrate binding site [chemical binding]; other site 1208658014541 ligand binding site [chemical binding]; other site 1208658014542 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658014543 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1208658014544 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658014545 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 1208658014546 dimerization interface [polypeptide binding]; other site 1208658014547 D-lactate dehydrogenase; Provisional; Region: PRK11183 1208658014548 FAD binding domain; Region: FAD_binding_4; pfam01565 1208658014549 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1208658014550 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 1208658014551 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1208658014552 active site 1208658014553 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1208658014554 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 1208658014555 FAD binding site [chemical binding]; other site 1208658014556 substrate binding site [chemical binding]; other site 1208658014557 catalytic base [active] 1208658014558 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658014559 acetylornithine deacetylase; Provisional; Region: PRK07522 1208658014560 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1208658014561 metal binding site [ion binding]; metal-binding site 1208658014562 putative dimer interface [polypeptide binding]; other site 1208658014563 Uncharacterized conserved protein [Function unknown]; Region: COG3342 1208658014564 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 1208658014565 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 1208658014566 homotrimer interaction site [polypeptide binding]; other site 1208658014567 putative active site [active] 1208658014568 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1208658014569 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 1208658014570 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1208658014571 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1208658014572 NADP binding site [chemical binding]; other site 1208658014573 dimer interface [polypeptide binding]; other site 1208658014574 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658014575 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658014576 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 1208658014577 putative substrate binding pocket [chemical binding]; other site 1208658014578 dimerization interface [polypeptide binding]; other site 1208658014579 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1208658014580 CoA binding domain; Region: CoA_binding_2; pfam13380 1208658014581 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1208658014582 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1208658014583 enoyl-CoA hydratase; Provisional; Region: PRK07658 1208658014584 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 1208658014585 substrate binding site [chemical binding]; other site 1208658014586 oxyanion hole (OAH) forming residues; other site 1208658014587 trimer interface [polypeptide binding]; other site 1208658014588 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1208658014589 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 1208658014590 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658014591 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1208658014592 extended (e) SDRs; Region: SDR_e; cd08946 1208658014593 NAD(P) binding site [chemical binding]; other site 1208658014594 active site 1208658014595 substrate binding site [chemical binding]; other site 1208658014596 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1208658014597 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 1208658014598 glutaminase active site [active] 1208658014599 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 1208658014600 dimer interface [polypeptide binding]; other site 1208658014601 active site 1208658014602 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 1208658014603 dimer interface [polypeptide binding]; other site 1208658014604 active site 1208658014605 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208658014606 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 1208658014607 putative DNA binding site [nucleotide binding]; other site 1208658014608 putative Zn2+ binding site [ion binding]; other site 1208658014609 AsnC family; Region: AsnC_trans_reg; pfam01037 1208658014610 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1208658014611 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208658014612 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 1208658014613 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1208658014614 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1208658014615 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1208658014616 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 1208658014617 putative substrate translocation pore; other site 1208658014618 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1208658014619 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1208658014620 Substrate binding site; other site 1208658014621 Mg++ binding site; other site 1208658014622 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 1208658014623 active site 1208658014624 substrate binding site [chemical binding]; other site 1208658014625 CoA binding site [chemical binding]; other site 1208658014626 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 1208658014627 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1208658014628 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 1208658014629 Cu(I) binding site [ion binding]; other site 1208658014630 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1208658014631 UbiA prenyltransferase family; Region: UbiA; pfam01040 1208658014632 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1208658014633 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1208658014634 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1208658014635 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1208658014636 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 1208658014637 Subunit III/VIIa interface [polypeptide binding]; other site 1208658014638 Phospholipid binding site [chemical binding]; other site 1208658014639 Subunit I/III interface [polypeptide binding]; other site 1208658014640 Subunit III/VIb interface [polypeptide binding]; other site 1208658014641 Subunit III/VIa interface; other site 1208658014642 Subunit III/Vb interface [polypeptide binding]; other site 1208658014643 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1208658014644 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1208658014645 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 1208658014646 Subunit I/III interface [polypeptide binding]; other site 1208658014647 D-pathway; other site 1208658014648 Subunit I/VIIc interface [polypeptide binding]; other site 1208658014649 Subunit I/IV interface [polypeptide binding]; other site 1208658014650 Subunit I/II interface [polypeptide binding]; other site 1208658014651 Low-spin heme (heme a) binding site [chemical binding]; other site 1208658014652 Subunit I/VIIa interface [polypeptide binding]; other site 1208658014653 Subunit I/VIa interface [polypeptide binding]; other site 1208658014654 Dimer interface; other site 1208658014655 Putative water exit pathway; other site 1208658014656 Binuclear center (heme a3/CuB) [ion binding]; other site 1208658014657 K-pathway; other site 1208658014658 Subunit I/Vb interface [polypeptide binding]; other site 1208658014659 Putative proton exit pathway; other site 1208658014660 Subunit I/VIb interface; other site 1208658014661 Subunit I/VIc interface [polypeptide binding]; other site 1208658014662 Electron transfer pathway; other site 1208658014663 Subunit I/VIIIb interface [polypeptide binding]; other site 1208658014664 Subunit I/VIIb interface [polypeptide binding]; other site 1208658014665 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 1208658014666 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1208658014667 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1208658014668 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1208658014669 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1208658014670 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 1208658014671 nudix motif; other site 1208658014672 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1208658014673 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 1208658014674 flexible hinge region; other site 1208658014675 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1208658014676 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1208658014677 active site 1208658014678 metal binding site [ion binding]; metal-binding site 1208658014679 hexamer interface [polypeptide binding]; other site 1208658014680 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1208658014681 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208658014682 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 1208658014683 DNA binding residues [nucleotide binding] 1208658014684 S-formylglutathione hydrolase; Region: PLN02442 1208658014685 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1208658014686 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1208658014687 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1208658014688 substrate binding site [chemical binding]; other site 1208658014689 catalytic Zn binding site [ion binding]; other site 1208658014690 NAD binding site [chemical binding]; other site 1208658014691 structural Zn binding site [ion binding]; other site 1208658014692 dimer interface [polypeptide binding]; other site 1208658014693 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1208658014694 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 1208658014695 active site 1208658014696 dimer interface [polypeptide binding]; other site 1208658014697 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1208658014698 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 1208658014699 active site 1208658014700 FMN binding site [chemical binding]; other site 1208658014701 substrate binding site [chemical binding]; other site 1208658014702 3Fe-4S cluster binding site [ion binding]; other site 1208658014703 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 1208658014704 domain interface; other site 1208658014705 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1208658014706 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1208658014707 OmpW family; Region: OmpW; cl17427 1208658014708 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658014709 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1208658014710 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1208658014711 Walker A/P-loop; other site 1208658014712 ATP binding site [chemical binding]; other site 1208658014713 Q-loop/lid; other site 1208658014714 ABC transporter signature motif; other site 1208658014715 Walker B; other site 1208658014716 D-loop; other site 1208658014717 H-loop/switch region; other site 1208658014718 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1208658014719 Permease; Region: Permease; pfam02405 1208658014720 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1208658014721 mce related protein; Region: MCE; pfam02470 1208658014722 VacJ like lipoprotein; Region: VacJ; cl01073 1208658014723 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1208658014724 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1208658014725 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 1208658014726 Walker A/P-loop; other site 1208658014727 ATP binding site [chemical binding]; other site 1208658014728 Q-loop/lid; other site 1208658014729 ABC transporter signature motif; other site 1208658014730 Walker B; other site 1208658014731 D-loop; other site 1208658014732 H-loop/switch region; other site 1208658014733 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1208658014734 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1208658014735 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1208658014736 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1208658014737 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 1208658014738 hinge; other site 1208658014739 active site 1208658014740 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1208658014741 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1208658014742 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1208658014743 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 1208658014744 NAD binding site [chemical binding]; other site 1208658014745 dimerization interface [polypeptide binding]; other site 1208658014746 product binding site; other site 1208658014747 substrate binding site [chemical binding]; other site 1208658014748 zinc binding site [ion binding]; other site 1208658014749 catalytic residues [active] 1208658014750 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 1208658014751 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 1208658014752 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658014753 homodimer interface [polypeptide binding]; other site 1208658014754 catalytic residue [active] 1208658014755 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1208658014756 putative active site pocket [active] 1208658014757 4-fold oligomerization interface [polypeptide binding]; other site 1208658014758 metal binding residues [ion binding]; metal-binding site 1208658014759 3-fold/trimer interface [polypeptide binding]; other site 1208658014760 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1208658014761 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1208658014762 putative active site [active] 1208658014763 oxyanion strand; other site 1208658014764 catalytic triad [active] 1208658014765 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 1208658014766 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1208658014767 catalytic residues [active] 1208658014768 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 1208658014769 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1208658014770 substrate binding site [chemical binding]; other site 1208658014771 glutamase interaction surface [polypeptide binding]; other site 1208658014772 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1208658014773 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 1208658014774 metal binding site [ion binding]; metal-binding site 1208658014775 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 1208658014776 nucleotide binding site/active site [active] 1208658014777 HIT family signature motif; other site 1208658014778 catalytic residue [active] 1208658014779 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 1208658014780 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1208658014781 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1208658014782 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1208658014783 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 1208658014784 non-specific DNA binding site [nucleotide binding]; other site 1208658014785 salt bridge; other site 1208658014786 sequence-specific DNA binding site [nucleotide binding]; other site 1208658014787 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1208658014788 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 1208658014789 protein binding site [polypeptide binding]; other site 1208658014790 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1208658014791 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1208658014792 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1208658014793 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1208658014794 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1208658014795 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 1208658014796 [2Fe-2S] cluster binding site [ion binding]; other site 1208658014797 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1208658014798 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 1208658014799 Qi binding site; other site 1208658014800 intrachain domain interface; other site 1208658014801 interchain domain interface [polypeptide binding]; other site 1208658014802 heme bH binding site [chemical binding]; other site 1208658014803 heme bL binding site [chemical binding]; other site 1208658014804 Qo binding site; other site 1208658014805 interchain domain interface [polypeptide binding]; other site 1208658014806 intrachain domain interface; other site 1208658014807 Qi binding site; other site 1208658014808 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1208658014809 Qo binding site; other site 1208658014810 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1208658014811 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1208658014812 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 1208658014813 C-terminal domain interface [polypeptide binding]; other site 1208658014814 putative GSH binding site (G-site) [chemical binding]; other site 1208658014815 dimer interface [polypeptide binding]; other site 1208658014816 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1208658014817 dimer interface [polypeptide binding]; other site 1208658014818 N-terminal domain interface [polypeptide binding]; other site 1208658014819 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1208658014820 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1208658014821 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208658014822 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1208658014823 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 1208658014824 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1208658014825 active site 1208658014826 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658014827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658014828 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 1208658014829 putative dimerization interface [polypeptide binding]; other site 1208658014830 thioredoxin reductase; Provisional; Region: PRK10262 1208658014831 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1208658014832 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208658014833 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208658014834 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208658014835 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658014836 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 1208658014837 active site residue [active] 1208658014838 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 1208658014839 active site residue [active] 1208658014840 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 1208658014841 active site residue [active] 1208658014842 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1208658014843 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658014844 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658014845 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658014846 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1208658014847 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1208658014848 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1208658014849 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208658014850 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208658014851 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1208658014852 catalytic residues [active] 1208658014853 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 1208658014854 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658014855 EamA-like transporter family; Region: EamA; pfam00892 1208658014856 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1208658014857 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208658014858 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 1208658014859 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 1208658014860 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 1208658014861 G1 box; other site 1208658014862 GTP/Mg2+ binding site [chemical binding]; other site 1208658014863 G2 box; other site 1208658014864 Switch I region; other site 1208658014865 G3 box; other site 1208658014866 Switch II region; other site 1208658014867 G4 box; other site 1208658014868 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 1208658014869 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 1208658014870 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1208658014871 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208658014872 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658014873 dimer interface [polypeptide binding]; other site 1208658014874 conserved gate region; other site 1208658014875 putative PBP binding loops; other site 1208658014876 ABC-ATPase subunit interface; other site 1208658014877 dipeptide transporter; Provisional; Region: PRK10913 1208658014878 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658014879 dimer interface [polypeptide binding]; other site 1208658014880 conserved gate region; other site 1208658014881 putative PBP binding loops; other site 1208658014882 ABC-ATPase subunit interface; other site 1208658014883 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1208658014884 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658014885 Walker A/P-loop; other site 1208658014886 ATP binding site [chemical binding]; other site 1208658014887 Q-loop/lid; other site 1208658014888 ABC transporter signature motif; other site 1208658014889 Walker B; other site 1208658014890 D-loop; other site 1208658014891 H-loop/switch region; other site 1208658014892 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1208658014893 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658014894 Walker A/P-loop; other site 1208658014895 ATP binding site [chemical binding]; other site 1208658014896 Q-loop/lid; other site 1208658014897 ABC transporter signature motif; other site 1208658014898 Walker B; other site 1208658014899 D-loop; other site 1208658014900 H-loop/switch region; other site 1208658014901 Repair protein; Region: Repair_PSII; pfam04536 1208658014902 LemA family; Region: LemA; pfam04011 1208658014903 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 1208658014904 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1208658014905 ATP binding site [chemical binding]; other site 1208658014906 Mg++ binding site [ion binding]; other site 1208658014907 motif III; other site 1208658014908 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 1208658014909 nucleotide binding region [chemical binding]; other site 1208658014910 ATP-binding site [chemical binding]; other site 1208658014911 LysE type translocator; Region: LysE; cl00565 1208658014912 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1208658014913 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1208658014914 G1 box; other site 1208658014915 putative GEF interaction site [polypeptide binding]; other site 1208658014916 GTP/Mg2+ binding site [chemical binding]; other site 1208658014917 Switch I region; other site 1208658014918 G2 box; other site 1208658014919 G3 box; other site 1208658014920 Switch II region; other site 1208658014921 G4 box; other site 1208658014922 G5 box; other site 1208658014923 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 1208658014924 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1208658014925 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1208658014926 heme binding site [chemical binding]; other site 1208658014927 ferroxidase pore; other site 1208658014928 ferroxidase diiron center [ion binding]; other site 1208658014929 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208658014930 EamA-like transporter family; Region: EamA; pfam00892 1208658014931 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208658014932 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208658014933 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 1208658014934 dimerization interface [polypeptide binding]; other site 1208658014935 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1208658014936 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1208658014937 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1208658014938 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1208658014939 2-isopropylmalate synthase; Validated; Region: PRK03739 1208658014940 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1208658014941 active site 1208658014942 catalytic residues [active] 1208658014943 metal binding site [ion binding]; metal-binding site 1208658014944 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1208658014945 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208658014946 Amidase; Region: Amidase; cl11426 1208658014947 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1208658014948 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1208658014949 DNA binding site [nucleotide binding] 1208658014950 domain linker motif; other site 1208658014951 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 1208658014952 putative dimerization interface [polypeptide binding]; other site 1208658014953 putative ligand binding site [chemical binding]; other site 1208658014954 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1208658014955 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1208658014956 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658014957 dimer interface [polypeptide binding]; other site 1208658014958 conserved gate region; other site 1208658014959 putative PBP binding loops; other site 1208658014960 ABC-ATPase subunit interface; other site 1208658014961 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1208658014962 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658014963 dimer interface [polypeptide binding]; other site 1208658014964 conserved gate region; other site 1208658014965 putative PBP binding loops; other site 1208658014966 ABC-ATPase subunit interface; other site 1208658014967 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1208658014968 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658014969 Walker A/P-loop; other site 1208658014970 ATP binding site [chemical binding]; other site 1208658014971 Q-loop/lid; other site 1208658014972 ABC transporter signature motif; other site 1208658014973 Walker B; other site 1208658014974 D-loop; other site 1208658014975 H-loop/switch region; other site 1208658014976 TOBE domain; Region: TOBE_2; pfam08402 1208658014977 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1208658014978 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1208658014979 active site 1208658014980 metal binding site [ion binding]; metal-binding site 1208658014981 hexamer interface [polypeptide binding]; other site 1208658014982 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1208658014983 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208658014984 Walker A/P-loop; other site 1208658014985 ATP binding site [chemical binding]; other site 1208658014986 Q-loop/lid; other site 1208658014987 ABC transporter signature motif; other site 1208658014988 Walker B; other site 1208658014989 D-loop; other site 1208658014990 H-loop/switch region; other site 1208658014991 TOBE domain; Region: TOBE_2; pfam08402 1208658014992 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1208658014993 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1208658014994 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658014995 dimer interface [polypeptide binding]; other site 1208658014996 conserved gate region; other site 1208658014997 putative PBP binding loops; other site 1208658014998 ABC-ATPase subunit interface; other site 1208658014999 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1208658015000 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658015001 dimer interface [polypeptide binding]; other site 1208658015002 conserved gate region; other site 1208658015003 putative PBP binding loops; other site 1208658015004 ABC-ATPase subunit interface; other site 1208658015005 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 1208658015006 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1208658015007 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1208658015008 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1208658015009 active site 1208658015010 HIGH motif; other site 1208658015011 KMSK motif region; other site 1208658015012 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1208658015013 tRNA binding surface [nucleotide binding]; other site 1208658015014 anticodon binding site; other site 1208658015015 Sporulation related domain; Region: SPOR; pfam05036 1208658015016 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 1208658015017 catalytic residues [active] 1208658015018 hinge region; other site 1208658015019 alpha helical domain; other site 1208658015020 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1208658015021 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 1208658015022 homodimer interface [polypeptide binding]; other site 1208658015023 substrate-cofactor binding pocket; other site 1208658015024 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658015025 catalytic residue [active] 1208658015026 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1208658015027 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1208658015028 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1208658015029 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1208658015030 DNA binding residues [nucleotide binding] 1208658015031 putative dimer interface [polypeptide binding]; other site 1208658015032 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1208658015033 isovaleryl-CoA dehydrogenase; Region: PLN02519 1208658015034 substrate binding site [chemical binding]; other site 1208658015035 FAD binding site [chemical binding]; other site 1208658015036 catalytic base [active] 1208658015037 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1208658015038 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 1208658015039 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1208658015040 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 1208658015041 dimer interface [polypeptide binding]; other site 1208658015042 active site 1208658015043 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1208658015044 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1208658015045 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1208658015046 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1208658015047 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208658015048 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1208658015049 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 1208658015050 carboxyltransferase (CT) interaction site; other site 1208658015051 biotinylation site [posttranslational modification]; other site 1208658015052 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1208658015053 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 1208658015054 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 1208658015055 inhibitor-cofactor binding pocket; inhibition site 1208658015056 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658015057 catalytic residue [active] 1208658015058 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658015059 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 1208658015060 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1208658015061 active site 1208658015062 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1208658015063 dimer interface [polypeptide binding]; other site 1208658015064 substrate binding site [chemical binding]; other site 1208658015065 catalytic residue [active] 1208658015066 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1208658015067 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1208658015068 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 1208658015069 DctM-like transporters; Region: DctM; pfam06808 1208658015070 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1208658015071 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 1208658015072 N-terminal plug; other site 1208658015073 ligand-binding site [chemical binding]; other site 1208658015074 Protein of unknown function (DUF494); Region: DUF494; pfam04361 1208658015075 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 1208658015076 active site 1208658015077 HIGH motif; other site 1208658015078 nucleotide binding site [chemical binding]; other site 1208658015079 active site 1208658015080 KMSKS motif; other site 1208658015081 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 1208658015082 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 1208658015083 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 1208658015084 DNA topoisomerase III; Validated; Region: PRK08173 1208658015085 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 1208658015086 active site 1208658015087 putative interdomain interaction site [polypeptide binding]; other site 1208658015088 putative metal-binding site [ion binding]; other site 1208658015089 putative nucleotide binding site [chemical binding]; other site 1208658015090 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 1208658015091 domain I; other site 1208658015092 DNA binding groove [nucleotide binding] 1208658015093 phosphate binding site [ion binding]; other site 1208658015094 domain II; other site 1208658015095 domain III; other site 1208658015096 nucleotide binding site [chemical binding]; other site 1208658015097 catalytic site [active] 1208658015098 domain IV; other site 1208658015099 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1208658015100 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1208658015101 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1208658015102 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 1208658015103 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208658015104 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208658015105 Walker A/P-loop; other site 1208658015106 ATP binding site [chemical binding]; other site 1208658015107 Q-loop/lid; other site 1208658015108 ABC transporter signature motif; other site 1208658015109 Walker B; other site 1208658015110 D-loop; other site 1208658015111 H-loop/switch region; other site 1208658015112 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208658015113 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658015114 dimer interface [polypeptide binding]; other site 1208658015115 conserved gate region; other site 1208658015116 putative PBP binding loops; other site 1208658015117 ABC-ATPase subunit interface; other site 1208658015118 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 1208658015119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208658015120 NAD(P) binding site [chemical binding]; other site 1208658015121 active site 1208658015122 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208658015123 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 1208658015124 NAD(P) binding site [chemical binding]; other site 1208658015125 catalytic residues [active] 1208658015126 catalytic residues [active] 1208658015127 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 1208658015128 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1208658015129 putative NAD(P) binding site [chemical binding]; other site 1208658015130 active site 1208658015131 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1208658015132 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1208658015133 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1208658015134 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 1208658015135 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208658015136 PYR/PP interface [polypeptide binding]; other site 1208658015137 dimer interface [polypeptide binding]; other site 1208658015138 TPP binding site [chemical binding]; other site 1208658015139 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208658015140 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 1208658015141 TPP-binding site [chemical binding]; other site 1208658015142 dimer interface [polypeptide binding]; other site 1208658015143 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208658015144 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 1208658015145 putative DNA binding site [nucleotide binding]; other site 1208658015146 putative Zn2+ binding site [ion binding]; other site 1208658015147 AsnC family; Region: AsnC_trans_reg; pfam01037 1208658015148 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1208658015149 Proteins containing SET domain [General function prediction only]; Region: COG2940 1208658015150 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 1208658015151 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK00014 1208658015152 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 1208658015153 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 1208658015154 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 1208658015155 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1208658015156 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1208658015157 NAD binding site [chemical binding]; other site 1208658015158 putative active site [active] 1208658015159 substrate binding site [chemical binding]; other site 1208658015160 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 1208658015161 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1208658015162 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1208658015163 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1208658015164 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1208658015165 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 1208658015166 active site residue [active] 1208658015167 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1208658015168 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1208658015169 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_5; cd06232 1208658015170 putative active site [active] 1208658015171 Zn binding site [ion binding]; other site 1208658015172 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1208658015173 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 1208658015174 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1208658015175 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 1208658015176 active site 1208658015177 substrate binding site [chemical binding]; other site 1208658015178 FMN binding site [chemical binding]; other site 1208658015179 putative catalytic residues [active] 1208658015180 acylphosphatase; Provisional; Region: PRK14424 1208658015181 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208658015182 amidase; Provisional; Region: PRK07486 1208658015183 Amidase; Region: Amidase; pfam01425 1208658015184 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1208658015185 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208658015186 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208658015187 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1208658015188 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 1208658015189 ATP binding site [chemical binding]; other site 1208658015190 Mg2+ binding site [ion binding]; other site 1208658015191 G-X-G motif; other site 1208658015192 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 1208658015193 anchoring element; other site 1208658015194 dimer interface [polypeptide binding]; other site 1208658015195 ATP binding site [chemical binding]; other site 1208658015196 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 1208658015197 active site 1208658015198 putative metal-binding site [ion binding]; other site 1208658015199 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1208658015200 DNA polymerase III subunit beta; Validated; Region: PRK05643 1208658015201 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 1208658015202 putative DNA binding surface [nucleotide binding]; other site 1208658015203 dimer interface [polypeptide binding]; other site 1208658015204 beta-clamp/clamp loader binding surface; other site 1208658015205 beta-clamp/translesion DNA polymerase binding surface; other site 1208658015206 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1208658015207 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1208658015208 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 1208658015209 Walker A motif; other site 1208658015210 ATP binding site [chemical binding]; other site 1208658015211 Walker B motif; other site 1208658015212 arginine finger; other site 1208658015213 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 1208658015214 DnaA box-binding interface [nucleotide binding]; other site 1208658015215 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1208658015216 ribonuclease P; Reviewed; Region: rnpA; PRK00038 1208658015217 Haemolytic domain; Region: Haemolytic; pfam01809 1208658015218 membrane protein insertase; Provisional; Region: PRK01318 1208658015219 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1208658015220 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1208658015221 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1208658015222 tetramer interface [polypeptide binding]; other site 1208658015223 heme binding pocket [chemical binding]; other site 1208658015224 NADPH binding site [chemical binding]; other site 1208658015225 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208658015226 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658015227 putative PBP binding loops; other site 1208658015228 ABC-ATPase subunit interface; other site 1208658015229 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1208658015230 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208658015231 Walker A/P-loop; other site 1208658015232 ATP binding site [chemical binding]; other site 1208658015233 Q-loop/lid; other site 1208658015234 ABC transporter signature motif; other site 1208658015235 Walker B; other site 1208658015236 D-loop; other site 1208658015237 H-loop/switch region; other site 1208658015238 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1208658015239 NMT1-like family; Region: NMT1_2; pfam13379 1208658015240 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1208658015241 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1208658015242 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1208658015243 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1208658015244 metal binding site [ion binding]; metal-binding site 1208658015245 putative dimer interface [polypeptide binding]; other site 1208658015246 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 1208658015247 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658015248 Walker A/P-loop; other site 1208658015249 ATP binding site [chemical binding]; other site 1208658015250 Q-loop/lid; other site 1208658015251 ABC transporter signature motif; other site 1208658015252 Walker B; other site 1208658015253 D-loop; other site 1208658015254 H-loop/switch region; other site 1208658015255 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1208658015256 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1208658015257 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208658015258 Walker A/P-loop; other site 1208658015259 ATP binding site [chemical binding]; other site 1208658015260 Q-loop/lid; other site 1208658015261 ABC transporter signature motif; other site 1208658015262 Walker B; other site 1208658015263 D-loop; other site 1208658015264 H-loop/switch region; other site 1208658015265 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1208658015266 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1208658015267 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658015268 dimer interface [polypeptide binding]; other site 1208658015269 conserved gate region; other site 1208658015270 putative PBP binding loops; other site 1208658015271 ABC-ATPase subunit interface; other site 1208658015272 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208658015273 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1208658015274 dimer interface [polypeptide binding]; other site 1208658015275 conserved gate region; other site 1208658015276 putative PBP binding loops; other site 1208658015277 ABC-ATPase subunit interface; other site 1208658015278 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1208658015279 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 1208658015280 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1208658015281 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1208658015282 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1208658015283 G1 box; other site 1208658015284 GTP/Mg2+ binding site [chemical binding]; other site 1208658015285 Switch I region; other site 1208658015286 G2 box; other site 1208658015287 Switch II region; other site 1208658015288 G3 box; other site 1208658015289 G4 box; other site 1208658015290 G5 box; other site 1208658015291 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1208658015292 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1208658015293 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 1208658015294 active site 1208658015295 phosphorylation site [posttranslational modification] 1208658015296 intermolecular recognition site; other site 1208658015297 dimerization interface [polypeptide binding]; other site 1208658015298 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 1208658015299 DNA binding site [nucleotide binding] 1208658015300 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1208658015301 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1208658015302 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 1208658015303 dimer interface [polypeptide binding]; other site 1208658015304 phosphorylation site [posttranslational modification] 1208658015305 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 1208658015306 ATP binding site [chemical binding]; other site 1208658015307 Mg2+ binding site [ion binding]; other site 1208658015308 G-X-G motif; other site 1208658015309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208658015310 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1208658015311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1208658015312 methionine aminotransferase; Validated; Region: PRK09082 1208658015313 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 1208658015314 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208658015315 homodimer interface [polypeptide binding]; other site 1208658015316 catalytic residue [active] 1208658015317 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 1208658015318 DNA-binding site [nucleotide binding]; DNA binding site 1208658015319 RNA-binding motif; other site