-- dump date 20140619_004001 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1208660000001 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1208660000002 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1208660000003 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1208660000004 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1208660000005 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1208660000006 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1208660000007 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 1208660000008 P-loop; other site 1208660000009 Magnesium ion binding site [ion binding]; other site 1208660000010 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 1208660000011 Magnesium ion binding site [ion binding]; other site 1208660000012 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1208660000013 Coenzyme A binding pocket [chemical binding]; other site 1208660000014 ParB-like nuclease domain; Region: ParB; smart00470 1208660000015 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1208660000016 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1208660000017 active site 1208660000018 homotetramer interface [polypeptide binding]; other site 1208660000019 homodimer interface [polypeptide binding]; other site 1208660000020 elongation factor Tu; Reviewed; Region: PRK00049 1208660000021 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1208660000022 G1 box; other site 1208660000023 GEF interaction site [polypeptide binding]; other site 1208660000024 GTP/Mg2+ binding site [chemical binding]; other site 1208660000025 Switch I region; other site 1208660000026 G2 box; other site 1208660000027 G3 box; other site 1208660000028 Switch II region; other site 1208660000029 G4 box; other site 1208660000030 G5 box; other site 1208660000031 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 1208660000032 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 1208660000033 Antibiotic Binding Site [chemical binding]; other site 1208660000034 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1208660000035 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1208660000036 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1208660000037 putative homodimer interface [polypeptide binding]; other site 1208660000038 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1208660000039 heterodimer interface [polypeptide binding]; other site 1208660000040 homodimer interface [polypeptide binding]; other site 1208660000041 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1208660000042 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 1208660000043 23S rRNA interface [nucleotide binding]; other site 1208660000044 L7/L12 interface [polypeptide binding]; other site 1208660000045 putative thiostrepton binding site; other site 1208660000046 L25 interface [polypeptide binding]; other site 1208660000047 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 1208660000048 mRNA/rRNA interface [nucleotide binding]; other site 1208660000049 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 1208660000050 23S rRNA interface [nucleotide binding]; other site 1208660000051 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1208660000052 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 1208660000053 core dimer interface [polypeptide binding]; other site 1208660000054 peripheral dimer interface [polypeptide binding]; other site 1208660000055 L10 interface [polypeptide binding]; other site 1208660000056 L11 interface [polypeptide binding]; other site 1208660000057 putative EF-Tu interaction site [polypeptide binding]; other site 1208660000058 putative EF-G interaction site [polypeptide binding]; other site 1208660000059 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1208660000060 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 1208660000061 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1208660000062 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 1208660000063 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1208660000064 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 1208660000065 RPB3 interaction site [polypeptide binding]; other site 1208660000066 RPB1 interaction site [polypeptide binding]; other site 1208660000067 RPB11 interaction site [polypeptide binding]; other site 1208660000068 RPB10 interaction site [polypeptide binding]; other site 1208660000069 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1208660000070 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1208660000071 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1208660000072 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1208660000073 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1208660000074 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1208660000075 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1208660000076 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1208660000077 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1208660000078 DNA binding site [nucleotide binding] 1208660000079 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1208660000080 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1208660000081 substrate binding site [chemical binding]; other site 1208660000082 activation loop (A-loop); other site 1208660000083 PEGA domain; Region: PEGA; pfam08308 1208660000085 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1208660000086 FecR protein; Region: FecR; pfam04773 1208660000087 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208660000088 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 1208660000089 active site 1208660000090 phosphorylation site [posttranslational modification] 1208660000091 intermolecular recognition site; other site 1208660000092 dimerization interface [polypeptide binding]; other site 1208660000093 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 1208660000094 DNA binding site [nucleotide binding] 1208660000095 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208660000096 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 1208660000097 active site 1208660000098 phosphorylation site [posttranslational modification] 1208660000099 intermolecular recognition site; other site 1208660000100 dimerization interface [polypeptide binding]; other site 1208660000101 DNA binding site [nucleotide binding] 1208660000102 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 1208660000103 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1208660000104 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1208660000105 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1208660000106 putative metal binding site [ion binding]; other site 1208660000107 putative homodimer interface [polypeptide binding]; other site 1208660000108 putative homotetramer interface [polypeptide binding]; other site 1208660000109 putative homodimer-homodimer interface [polypeptide binding]; other site 1208660000110 putative allosteric switch controlling residues; other site 1208660000111 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 1208660000112 S17 interaction site [polypeptide binding]; other site 1208660000113 S8 interaction site; other site 1208660000114 16S rRNA interaction site [nucleotide binding]; other site 1208660000115 streptomycin interaction site [chemical binding]; other site 1208660000116 23S rRNA interaction site [nucleotide binding]; other site 1208660000117 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1208660000118 30S ribosomal protein S7; Validated; Region: PRK05302 1208660000119 elongation factor G; Reviewed; Region: PRK00007 1208660000120 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1208660000121 G1 box; other site 1208660000122 putative GEF interaction site [polypeptide binding]; other site 1208660000123 GTP/Mg2+ binding site [chemical binding]; other site 1208660000124 Switch I region; other site 1208660000125 G2 box; other site 1208660000126 G3 box; other site 1208660000127 Switch II region; other site 1208660000128 G4 box; other site 1208660000129 G5 box; other site 1208660000130 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 1208660000131 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 1208660000132 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 1208660000133 elongation factor Tu; Reviewed; Region: PRK00049 1208660000134 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1208660000135 G1 box; other site 1208660000136 GEF interaction site [polypeptide binding]; other site 1208660000137 GTP/Mg2+ binding site [chemical binding]; other site 1208660000138 Switch I region; other site 1208660000139 G2 box; other site 1208660000140 G3 box; other site 1208660000141 Switch II region; other site 1208660000142 G4 box; other site 1208660000143 G5 box; other site 1208660000144 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 1208660000145 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 1208660000146 Antibiotic Binding Site [chemical binding]; other site 1208660000147 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1208660000148 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1208660000149 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1208660000150 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1208660000151 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1208660000152 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1208660000153 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1208660000154 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1208660000155 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 1208660000156 putative translocon binding site; other site 1208660000157 protein-rRNA interface [nucleotide binding]; other site 1208660000158 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1208660000159 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 1208660000160 G-X-X-G motif; other site 1208660000161 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1208660000162 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 1208660000163 23S rRNA interface [nucleotide binding]; other site 1208660000164 5S rRNA interface [nucleotide binding]; other site 1208660000165 putative antibiotic binding site [chemical binding]; other site 1208660000166 L25 interface [polypeptide binding]; other site 1208660000167 L27 interface [polypeptide binding]; other site 1208660000168 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 1208660000169 23S rRNA interface [nucleotide binding]; other site 1208660000170 putative translocon interaction site; other site 1208660000171 signal recognition particle (SRP54) interaction site; other site 1208660000172 L23 interface [polypeptide binding]; other site 1208660000173 trigger factor interaction site; other site 1208660000174 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1208660000175 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208660000176 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208660000177 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1208660000178 tetramerization interface [polypeptide binding]; other site 1208660000179 NAD(P) binding site [chemical binding]; other site 1208660000180 catalytic residues [active] 1208660000181 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1208660000182 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1208660000183 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1208660000184 RNA binding site [nucleotide binding]; other site 1208660000185 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1208660000186 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1208660000187 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1208660000188 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1208660000189 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1208660000190 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1208660000191 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1208660000192 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1208660000193 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 1208660000194 5S rRNA interface [nucleotide binding]; other site 1208660000195 L27 interface [polypeptide binding]; other site 1208660000196 23S rRNA interface [nucleotide binding]; other site 1208660000197 L5 interface [polypeptide binding]; other site 1208660000198 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1208660000199 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1208660000200 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1208660000201 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 1208660000202 23S rRNA binding site [nucleotide binding]; other site 1208660000203 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1208660000204 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1208660000205 SecY translocase; Region: SecY; pfam00344 1208660000206 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 1208660000207 rRNA binding site [nucleotide binding]; other site 1208660000208 predicted 30S ribosome binding site; other site 1208660000209 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1208660000210 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1208660000211 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1208660000212 30S ribosomal protein S11; Validated; Region: PRK05309 1208660000213 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1208660000214 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1208660000215 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 1208660000216 RNA binding surface [nucleotide binding]; other site 1208660000217 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1208660000218 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1208660000219 alphaNTD homodimer interface [polypeptide binding]; other site 1208660000220 alphaNTD - beta interaction site [polypeptide binding]; other site 1208660000221 alphaNTD - beta' interaction site [polypeptide binding]; other site 1208660000222 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1208660000223 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1208660000224 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1208660000225 nucleotide binding site/active site [active] 1208660000226 HIT family signature motif; other site 1208660000227 catalytic residue [active] 1208660000228 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1208660000229 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 1208660000230 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1208660000231 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1208660000232 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 1208660000233 DsbD alpha interface [polypeptide binding]; other site 1208660000234 catalytic residues [active] 1208660000235 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208660000236 EamA-like transporter family; Region: EamA; pfam00892 1208660000237 EamA-like transporter family; Region: EamA; pfam00892 1208660000238 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 1208660000239 dimer interface [polypeptide binding]; other site 1208660000240 active site 1208660000241 aspartate-rich active site metal binding site; other site 1208660000242 allosteric magnesium binding site [ion binding]; other site 1208660000243 Schiff base residues; other site 1208660000244 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1208660000245 G1 box; other site 1208660000246 GTP/Mg2+ binding site [chemical binding]; other site 1208660000247 Switch I region; other site 1208660000248 G2 box; other site 1208660000249 G3 box; other site 1208660000250 Switch II region; other site 1208660000251 G4 box; other site 1208660000252 G5 box; other site 1208660000253 Cytochrome c; Region: Cytochrom_C; cl11414 1208660000254 Cytochrome c; Region: Cytochrom_C; cl11414 1208660000255 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1208660000256 ResB-like family; Region: ResB; pfam05140 1208660000257 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1208660000258 ResB-like family; Region: ResB; pfam05140 1208660000259 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1208660000260 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1208660000261 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1208660000262 active site 1208660000263 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1208660000264 substrate binding site [chemical binding]; other site 1208660000265 catalytic residues [active] 1208660000266 dimer interface [polypeptide binding]; other site 1208660000267 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 1208660000268 putative iron binding site [ion binding]; other site 1208660000269 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1208660000270 Transglycosylase; Region: Transgly; pfam00912 1208660000271 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1208660000272 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 1208660000273 shikimate kinase; Reviewed; Region: aroK; PRK00131 1208660000274 ADP binding site [chemical binding]; other site 1208660000275 magnesium binding site [ion binding]; other site 1208660000276 putative shikimate binding site; other site 1208660000277 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1208660000278 active site 1208660000279 dimer interface [polypeptide binding]; other site 1208660000280 metal binding site [ion binding]; metal-binding site 1208660000281 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1208660000282 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1208660000283 Zn2+ binding site [ion binding]; other site 1208660000284 Mg2+ binding site [ion binding]; other site 1208660000285 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1208660000286 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 1208660000287 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1208660000288 putative C-terminal domain interface [polypeptide binding]; other site 1208660000289 putative GSH binding site (G-site) [chemical binding]; other site 1208660000290 putative dimer interface [polypeptide binding]; other site 1208660000291 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1208660000292 putative substrate binding pocket (H-site) [chemical binding]; other site 1208660000293 putative N-terminal domain interface [polypeptide binding]; other site 1208660000294 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1208660000295 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1208660000296 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1208660000297 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1208660000298 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 1208660000299 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208660000300 putative substrate translocation pore; other site 1208660000301 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1208660000302 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 1208660000303 dimer interface [polypeptide binding]; other site 1208660000304 ssDNA binding site [nucleotide binding]; other site 1208660000305 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1208660000306 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1208660000307 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 1208660000308 N-terminal plug; other site 1208660000309 ligand-binding site [chemical binding]; other site 1208660000310 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1208660000311 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1208660000312 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660000313 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208660000314 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660000315 DNA-binding site [nucleotide binding]; DNA binding site 1208660000316 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1208660000317 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660000318 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660000319 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 1208660000320 substrate binding pocket [chemical binding]; other site 1208660000321 dimerization interface [polypeptide binding]; other site 1208660000322 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06151 1208660000323 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 1208660000324 active site 1208660000325 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660000328 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660000329 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660000330 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 1208660000331 dimerization interface [polypeptide binding]; other site 1208660000332 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1208660000333 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1208660000334 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 1208660000335 membrane-bound complex binding site; other site 1208660000336 hinge residues; other site 1208660000337 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208660000338 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660000339 dimer interface [polypeptide binding]; other site 1208660000340 conserved gate region; other site 1208660000341 putative PBP binding loops; other site 1208660000342 ABC-ATPase subunit interface; other site 1208660000343 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208660000344 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208660000345 Walker A/P-loop; other site 1208660000346 ATP binding site [chemical binding]; other site 1208660000347 Q-loop/lid; other site 1208660000348 ABC transporter signature motif; other site 1208660000349 Walker B; other site 1208660000350 D-loop; other site 1208660000351 H-loop/switch region; other site 1208660000352 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208660000353 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1208660000354 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660000355 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660000356 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1208660000357 malate synthase G; Provisional; Region: PRK02999 1208660000358 active site 1208660000359 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 1208660000360 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660000361 DNA-binding site [nucleotide binding]; DNA binding site 1208660000362 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1208660000363 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1208660000364 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1208660000365 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1208660000366 UbiA prenyltransferase family; Region: UbiA; pfam01040 1208660000368 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1208660000369 GAF domain; Region: GAF_2; pfam13185 1208660000370 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1208660000371 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1208660000372 dimer interface [polypeptide binding]; other site 1208660000373 active site 1208660000374 catalytic residue [active] 1208660000375 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1208660000376 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1208660000380 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1208660000381 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 1208660000382 S-adenosylmethionine binding site [chemical binding]; other site 1208660000384 choline dehydrogenase; Validated; Region: PRK02106 1208660000385 lycopene cyclase; Region: lycopene_cycl; TIGR01789 1208660000386 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1208660000387 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 1208660000388 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 1208660000389 Uncharacterized conserved protein [Function unknown]; Region: COG2928 1208660000390 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1208660000391 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 1208660000392 dimer interface [polypeptide binding]; other site 1208660000393 anticodon binding site; other site 1208660000394 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 1208660000395 homodimer interface [polypeptide binding]; other site 1208660000396 motif 1; other site 1208660000397 active site 1208660000398 motif 2; other site 1208660000399 GAD domain; Region: GAD; pfam02938 1208660000400 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 1208660000401 motif 3; other site 1208660000402 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1208660000403 putative catalytic site [active] 1208660000404 putative metal binding site [ion binding]; other site 1208660000405 putative phosphate binding site [ion binding]; other site 1208660000406 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1208660000407 PLD-like domain; Region: PLDc_2; pfam13091 1208660000408 putative active site [active] 1208660000409 catalytic site [active] 1208660000410 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1208660000411 PLD-like domain; Region: PLDc_2; pfam13091 1208660000412 putative active site [active] 1208660000413 catalytic site [active] 1208660000414 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1208660000415 EamA-like transporter family; Region: EamA; pfam00892 1208660000416 EamA-like transporter family; Region: EamA; pfam00892 1208660000418 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 1208660000419 putative hydrophobic ligand binding site [chemical binding]; other site 1208660000420 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1208660000421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660000422 NAD(P) binding site [chemical binding]; other site 1208660000423 active site 1208660000424 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1208660000425 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 1208660000426 inhibitor-cofactor binding pocket; inhibition site 1208660000427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660000428 catalytic residue [active] 1208660000429 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 1208660000430 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1208660000431 dimer interface [polypeptide binding]; other site 1208660000432 active site 1208660000433 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 1208660000434 Ligand Binding Site [chemical binding]; other site 1208660000435 Molecular Tunnel; other site 1208660000436 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 1208660000437 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1208660000438 active site 1208660000439 substrate binding site [chemical binding]; other site 1208660000440 cosubstrate binding site; other site 1208660000441 catalytic site [active] 1208660000442 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 1208660000443 active site 1208660000444 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1208660000445 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1208660000446 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 1208660000447 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 1208660000448 active site 1208660000449 substrate binding site [chemical binding]; other site 1208660000450 cosubstrate binding site; other site 1208660000451 catalytic site [active] 1208660000452 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 1208660000453 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 1208660000454 substrate binding site [chemical binding]; other site 1208660000455 active site 1208660000456 cosubstrate binding site; other site 1208660000457 catalytic site [active] 1208660000458 WbqC-like protein family; Region: WbqC; pfam08889 1208660000460 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1208660000461 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1208660000462 Walker A/P-loop; other site 1208660000463 ATP binding site [chemical binding]; other site 1208660000464 Q-loop/lid; other site 1208660000465 ABC transporter signature motif; other site 1208660000466 Walker B; other site 1208660000467 D-loop; other site 1208660000468 H-loop/switch region; other site 1208660000469 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1208660000470 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1208660000471 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1208660000472 Walker A/P-loop; other site 1208660000473 ATP binding site [chemical binding]; other site 1208660000474 Q-loop/lid; other site 1208660000475 ABC transporter signature motif; other site 1208660000476 Walker B; other site 1208660000477 D-loop; other site 1208660000478 H-loop/switch region; other site 1208660000479 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1208660000480 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1208660000481 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1208660000482 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 1208660000483 S-adenosylmethionine binding site [chemical binding]; other site 1208660000484 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 1208660000485 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 1208660000486 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208660000488 Bordetella bronchiseptica enzymes WbmH and WbmG-like, extended (e) SDRs; Region: WbmH_like_SDR_e; cd08957 1208660000489 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1208660000490 NAD binding site [chemical binding]; other site 1208660000491 homodimer interface [polypeptide binding]; other site 1208660000492 active site 1208660000493 putative substrate binding site [chemical binding]; other site 1208660000494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660000495 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1208660000496 NAD(P) binding site [chemical binding]; other site 1208660000497 active site 1208660000498 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1208660000499 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660000500 NAD(P) binding site [chemical binding]; other site 1208660000501 active site 1208660000502 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1208660000503 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 1208660000504 active site 1208660000505 dimer interface [polypeptide binding]; other site 1208660000506 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 1208660000507 Ligand Binding Site [chemical binding]; other site 1208660000508 Molecular Tunnel; other site 1208660000509 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 1208660000510 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208660000511 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 1208660000512 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1208660000513 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 1208660000514 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1208660000515 NAD(P) binding site [chemical binding]; other site 1208660000516 homodimer interface [polypeptide binding]; other site 1208660000517 substrate binding site [chemical binding]; other site 1208660000518 active site 1208660000519 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 1208660000520 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 1208660000521 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208660000522 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1208660000523 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1208660000524 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 1208660000525 inhibitor-cofactor binding pocket; inhibition site 1208660000526 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660000527 catalytic residue [active] 1208660000528 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208660000529 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 1208660000530 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 1208660000531 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 1208660000532 homodimer interface [polypeptide binding]; other site 1208660000533 active site 1208660000534 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1208660000535 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 1208660000536 inhibitor-cofactor binding pocket; inhibition site 1208660000537 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660000538 catalytic residue [active] 1208660000539 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 1208660000540 putative CoA binding site [chemical binding]; other site 1208660000541 putative trimer interface [polypeptide binding]; other site 1208660000542 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 1208660000543 putative trimer interface [polypeptide binding]; other site 1208660000544 putative active site [active] 1208660000545 putative substrate binding site [chemical binding]; other site 1208660000546 putative CoA binding site [chemical binding]; other site 1208660000547 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1208660000548 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1208660000549 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1208660000550 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 1208660000551 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 1208660000552 putative active site [active] 1208660000553 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1208660000554 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1208660000555 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 1208660000557 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1208660000558 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1208660000559 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1208660000560 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1208660000561 Permease; Region: Permease; pfam02405 1208660000562 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1208660000563 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1208660000564 Walker A/P-loop; other site 1208660000565 ATP binding site [chemical binding]; other site 1208660000566 Q-loop/lid; other site 1208660000567 ABC transporter signature motif; other site 1208660000568 Walker B; other site 1208660000569 D-loop; other site 1208660000570 H-loop/switch region; other site 1208660000571 mce related protein; Region: MCE; pfam02470 1208660000572 Protein of unknown function (DUF330); Region: DUF330; cl01135 1208660000573 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1208660000574 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1208660000575 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1208660000576 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1208660000577 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1208660000578 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 1208660000579 homodimer interface [polypeptide binding]; other site 1208660000580 substrate-cofactor binding pocket; other site 1208660000581 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660000582 catalytic residue [active] 1208660000583 hypothetical protein; Provisional; Region: PRK02047 1208660000584 lipoate-protein ligase B; Provisional; Region: PRK14349 1208660000585 lipoyl synthase; Provisional; Region: PRK05481 1208660000586 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 1208660000587 FeS/SAM binding site; other site 1208660000588 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 1208660000589 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1208660000590 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1208660000591 NADP binding site [chemical binding]; other site 1208660000592 active site 1208660000593 putative substrate binding site [chemical binding]; other site 1208660000594 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1208660000595 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1208660000596 NAD binding site [chemical binding]; other site 1208660000597 substrate binding site [chemical binding]; other site 1208660000598 homodimer interface [polypeptide binding]; other site 1208660000599 active site 1208660000600 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 1208660000601 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1208660000602 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1208660000603 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 1208660000604 Walker A motif; other site 1208660000605 ATP binding site [chemical binding]; other site 1208660000606 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1208660000607 Walker B motif; other site 1208660000608 arginine finger; other site 1208660000609 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1208660000610 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 1208660000611 active site 1208660000612 HslU subunit interaction site [polypeptide binding]; other site 1208660000613 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1208660000614 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1208660000615 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 1208660000616 P-loop, Walker A motif; other site 1208660000617 Base recognition motif; other site 1208660000618 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1208660000619 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1208660000620 metal binding site 2 [ion binding]; metal-binding site 1208660000621 putative DNA binding helix; other site 1208660000622 metal binding site 1 [ion binding]; metal-binding site 1208660000623 dimer interface [polypeptide binding]; other site 1208660000624 structural Zn2+ binding site [ion binding]; other site 1208660000625 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1208660000626 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660000627 Walker A/P-loop; other site 1208660000628 ATP binding site [chemical binding]; other site 1208660000629 Q-loop/lid; other site 1208660000630 ABC transporter signature motif; other site 1208660000631 Walker B; other site 1208660000632 D-loop; other site 1208660000633 H-loop/switch region; other site 1208660000634 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1208660000635 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 1208660000636 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 1208660000637 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1208660000638 metal binding site [ion binding]; metal-binding site 1208660000639 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 1208660000640 High-affinity nickel-transport protein; Region: NicO; cl00964 1208660000641 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1208660000642 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1208660000643 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 1208660000644 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1208660000645 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 1208660000646 active site 1208660000647 DNA binding site [nucleotide binding] 1208660000648 Int/Topo IB signature motif; other site 1208660000649 Protein of unknown function, DUF484; Region: DUF484; cl17449 1208660000650 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1208660000651 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1208660000652 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1208660000653 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1208660000654 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1208660000655 putative acyl-acceptor binding pocket; other site 1208660000656 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1208660000657 putative acyl-acceptor binding pocket; other site 1208660000658 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1208660000659 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1208660000660 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1208660000661 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1208660000662 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1208660000663 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208660000664 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 1208660000665 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1208660000666 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1208660000667 homotetramer interface [polypeptide binding]; other site 1208660000668 ligand binding site [chemical binding]; other site 1208660000669 catalytic site [active] 1208660000670 NAD binding site [chemical binding]; other site 1208660000671 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 1208660000672 FAD binding site [chemical binding]; other site 1208660000673 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660000674 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660000675 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 1208660000676 dimerization interface [polypeptide binding]; other site 1208660000677 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1208660000678 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1208660000679 active site 1208660000680 Zn binding site [ion binding]; other site 1208660000681 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 1208660000682 metabolite-proton symporter; Region: 2A0106; TIGR00883 1208660000683 putative substrate translocation pore; other site 1208660000684 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 1208660000685 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1208660000686 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 1208660000687 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1208660000688 catalytic residue [active] 1208660000689 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13297 1208660000690 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1208660000691 active site 1208660000692 NTP binding site [chemical binding]; other site 1208660000693 metal binding triad [ion binding]; metal-binding site 1208660000694 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1208660000695 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1208660000696 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1208660000697 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 1208660000698 ATP binding site [chemical binding]; other site 1208660000699 Mg++ binding site [ion binding]; other site 1208660000700 motif III; other site 1208660000701 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 1208660000702 nucleotide binding region [chemical binding]; other site 1208660000703 ATP-binding site [chemical binding]; other site 1208660000704 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1208660000705 ligand binding site [chemical binding]; other site 1208660000706 active site 1208660000707 UGI interface [polypeptide binding]; other site 1208660000708 catalytic site [active] 1208660000709 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1208660000710 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 1208660000711 motif II; other site 1208660000712 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1208660000713 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1208660000714 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1208660000715 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1208660000716 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208660000717 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1208660000718 metal binding site 2 [ion binding]; metal-binding site 1208660000719 putative DNA binding helix; other site 1208660000720 metal binding site 1 [ion binding]; metal-binding site 1208660000721 dimer interface [polypeptide binding]; other site 1208660000722 structural Zn2+ binding site [ion binding]; other site 1208660000723 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1208660000724 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 1208660000725 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208660000727 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208660000728 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1208660000729 Coenzyme A binding pocket [chemical binding]; other site 1208660000730 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 1208660000731 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1208660000732 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1208660000733 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1208660000734 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 1208660000735 putative DNA binding site [nucleotide binding]; other site 1208660000736 putative Zn2+ binding site [ion binding]; other site 1208660000737 Predicted transporter component [General function prediction only]; Region: COG2391 1208660000738 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 1208660000739 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1208660000740 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208660000741 acyl-activating enzyme (AAE) consensus motif; other site 1208660000742 active site 1208660000743 AMP binding site [chemical binding]; other site 1208660000744 CoA binding site [chemical binding]; other site 1208660000745 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208660000746 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660000747 Walker A/P-loop; other site 1208660000748 ATP binding site [chemical binding]; other site 1208660000749 Q-loop/lid; other site 1208660000750 ABC transporter signature motif; other site 1208660000751 Walker B; other site 1208660000752 D-loop; other site 1208660000753 H-loop/switch region; other site 1208660000755 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208660000756 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 1208660000757 TM-ABC transporter signature motif; other site 1208660000758 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660000759 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 1208660000760 TM-ABC transporter signature motif; other site 1208660000762 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1208660000763 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208660000764 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1208660000765 acyl-activating enzyme (AAE) consensus motif; other site 1208660000766 putative AMP binding site [chemical binding]; other site 1208660000767 putative active site [active] 1208660000768 putative CoA binding site [chemical binding]; other site 1208660000769 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1208660000770 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 1208660000771 ligand binding site [chemical binding]; other site 1208660000772 flexible hinge region; other site 1208660000773 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1208660000774 LysE type translocator; Region: LysE; cl00565 1208660000775 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1208660000776 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660000777 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 1208660000778 dimerization interface [polypeptide binding]; other site 1208660000779 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1208660000780 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660000781 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1208660000782 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1208660000783 catalytic residue [active] 1208660000784 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 1208660000785 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1208660000786 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660000787 homodimer interface [polypeptide binding]; other site 1208660000788 catalytic residue [active] 1208660000789 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1208660000790 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 1208660000791 substrate binding pocket [chemical binding]; other site 1208660000792 membrane-bound complex binding site; other site 1208660000793 hinge residues; other site 1208660000794 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 1208660000795 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1208660000796 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1208660000797 active site 1208660000798 catalytic residues [active] 1208660000799 metal binding site [ion binding]; metal-binding site 1208660000800 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1208660000801 DNA protecting protein DprA; Region: dprA; TIGR00732 1208660000802 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208660000803 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 1208660000804 putative DNA binding site [nucleotide binding]; other site 1208660000805 putative Zn2+ binding site [ion binding]; other site 1208660000806 AsnC family; Region: AsnC_trans_reg; pfam01037 1208660000807 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 1208660000808 kynureninase; Region: kynureninase; TIGR01814 1208660000809 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208660000810 catalytic residue [active] 1208660000811 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 1208660000812 active site 1208660000813 catalytic residues [active] 1208660000814 metal binding site [ion binding]; metal-binding site 1208660000815 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1208660000816 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1208660000817 putative active site [active] 1208660000818 substrate binding site [chemical binding]; other site 1208660000819 putative cosubstrate binding site; other site 1208660000820 catalytic site [active] 1208660000821 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1208660000822 substrate binding site [chemical binding]; other site 1208660000823 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 1208660000824 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1208660000825 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 1208660000826 motif II; other site 1208660000827 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1208660000828 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1208660000829 Ferritin-like domain; Region: Ferritin; pfam00210 1208660000830 dinuclear metal binding motif [ion binding]; other site 1208660000832 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 1208660000833 active site 1 [active] 1208660000834 dimer interface [polypeptide binding]; other site 1208660000835 hexamer interface [polypeptide binding]; other site 1208660000836 active site 2 [active] 1208660000837 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1208660000838 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208660000839 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660000840 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208660000841 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660000842 DNA-binding site [nucleotide binding]; DNA binding site 1208660000843 FCD domain; Region: FCD; pfam07729 1208660000845 L-aspartate dehydrogenase; Provisional; Region: PRK13303 1208660000846 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1208660000847 Domain of unknown function DUF108; Region: DUF108; pfam01958 1208660000848 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1208660000849 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1208660000850 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 1208660000851 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 1208660000852 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1208660000853 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 1208660000854 dimerization interface [polypeptide binding]; other site 1208660000855 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 1208660000856 dimer interface [polypeptide binding]; other site 1208660000857 phosphorylation site [posttranslational modification] 1208660000858 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 1208660000859 ATP binding site [chemical binding]; other site 1208660000860 Mg2+ binding site [ion binding]; other site 1208660000861 G-X-G motif; other site 1208660000862 Response regulator receiver domain; Region: Response_reg; pfam00072 1208660000863 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 1208660000864 active site 1208660000865 phosphorylation site [posttranslational modification] 1208660000866 intermolecular recognition site; other site 1208660000867 dimerization interface [polypeptide binding]; other site 1208660000868 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1208660000869 TrkA-N domain; Region: TrkA_N; pfam02254 1208660000870 TrkA-C domain; Region: TrkA_C; pfam02080 1208660000871 TrkA-N domain; Region: TrkA_N; pfam02254 1208660000872 TrkA-C domain; Region: TrkA_C; pfam02080 1208660000873 Cation transport protein; Region: TrkH; cl17365 1208660000874 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1208660000875 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1208660000876 MarR family; Region: MarR_2; pfam12802 1208660000877 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1208660000878 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1208660000879 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1208660000880 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1208660000881 Ligand binding site; other site 1208660000882 metal-binding site 1208660000883 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1208660000884 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1208660000885 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208660000886 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1208660000887 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 1208660000888 Isochorismatase family; Region: Isochorismatase; pfam00857 1208660000889 catalytic triad [active] 1208660000890 conserved cis-peptide bond; other site 1208660000891 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 1208660000892 inter-subunit interface; other site 1208660000893 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1208660000894 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 1208660000895 iron-sulfur cluster [ion binding]; other site 1208660000896 [2Fe-2S] cluster binding site [ion binding]; other site 1208660000897 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 1208660000898 putative alpha subunit interface [polypeptide binding]; other site 1208660000899 putative active site [active] 1208660000900 putative substrate binding site [chemical binding]; other site 1208660000901 Fe binding site [ion binding]; other site 1208660000903 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 1208660000904 [2Fe-2S] cluster binding site [ion binding]; other site 1208660000905 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1208660000906 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208660000908 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 1208660000909 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1208660000910 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 1208660000911 catalytic loop [active] 1208660000912 iron binding site [ion binding]; other site 1208660000913 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1208660000914 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 1208660000915 putative hydrophobic ligand binding site [chemical binding]; other site 1208660000916 NMT1/THI5 like; Region: NMT1; pfam09084 1208660000917 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1208660000918 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208660000919 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208660000920 Walker A/P-loop; other site 1208660000921 ATP binding site [chemical binding]; other site 1208660000922 Q-loop/lid; other site 1208660000923 ABC transporter signature motif; other site 1208660000924 Walker B; other site 1208660000925 D-loop; other site 1208660000926 H-loop/switch region; other site 1208660000927 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208660000928 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660000929 ABC-ATPase subunit interface; other site 1208660000930 putative PBP binding loops; other site 1208660000931 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1208660000932 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1208660000933 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208660000934 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 1208660000935 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1208660000936 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1208660000937 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 1208660000938 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1208660000939 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1208660000940 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660000941 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1208660000942 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1208660000943 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1208660000944 preprotein translocase subunit SecB; Validated; Region: PRK05751 1208660000945 SecA binding site; other site 1208660000946 Preprotein binding site; other site 1208660000947 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 1208660000948 GSH binding site [chemical binding]; other site 1208660000949 catalytic residues [active] 1208660000950 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 1208660000951 active site residue [active] 1208660000952 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 1208660000953 catalytic core [active] 1208660000954 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 1208660000955 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1208660000956 Peptidase family M23; Region: Peptidase_M23; pfam01551 1208660000957 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1208660000958 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1208660000959 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 1208660000960 protein binding site [polypeptide binding]; other site 1208660000961 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1208660000962 Catalytic dyad [active] 1208660000963 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1208660000964 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 1208660000965 ATP binding site [chemical binding]; other site 1208660000966 substrate interface [chemical binding]; other site 1208660000967 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1208660000968 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660000969 DNA-binding site [nucleotide binding]; DNA binding site 1208660000970 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1208660000971 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1208660000972 FAD binding domain; Region: FAD_binding_4; pfam01565 1208660000973 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1208660000974 ThiC-associated domain; Region: ThiC-associated; pfam13667 1208660000975 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1208660000976 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1208660000977 HindIII restriction endonuclease; Region: RE_HindIII; pfam09518 1208660000978 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 1208660000979 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 1208660000980 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1208660000981 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 1208660000982 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 1208660000983 non-specific DNA binding site [nucleotide binding]; other site 1208660000984 salt bridge; other site 1208660000985 sequence-specific DNA binding site [nucleotide binding]; other site 1208660000986 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208660000987 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 1208660000988 DNA binding site [nucleotide binding] 1208660000989 gamma-glutamyl kinase; Provisional; Region: PRK05429 1208660000990 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 1208660000991 nucleotide binding site [chemical binding]; other site 1208660000992 homotetrameric interface [polypeptide binding]; other site 1208660000993 putative phosphate binding site [ion binding]; other site 1208660000994 putative allosteric binding site; other site 1208660000995 PUA domain; Region: PUA; pfam01472 1208660000996 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1208660000997 GTP1/OBG; Region: GTP1_OBG; pfam01018 1208660000998 Obg GTPase; Region: Obg; cd01898 1208660000999 G1 box; other site 1208660001000 GTP/Mg2+ binding site [chemical binding]; other site 1208660001001 Switch I region; other site 1208660001002 G2 box; other site 1208660001003 G3 box; other site 1208660001004 Switch II region; other site 1208660001005 G4 box; other site 1208660001006 G5 box; other site 1208660001007 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1208660001008 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1208660001009 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1208660001011 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1208660001012 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1208660001013 substrate binding pocket [chemical binding]; other site 1208660001014 chain length determination region; other site 1208660001015 substrate-Mg2+ binding site; other site 1208660001016 catalytic residues [active] 1208660001017 aspartate-rich region 1; other site 1208660001018 active site lid residues [active] 1208660001019 aspartate-rich region 2; other site 1208660001020 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660001021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660001022 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 1208660001023 dimerization interface [polypeptide binding]; other site 1208660001024 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1208660001025 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1208660001026 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1208660001028 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208660001029 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1208660001030 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660001031 succinic semialdehyde dehydrogenase; Region: PLN02278 1208660001032 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1208660001033 tetramerization interface [polypeptide binding]; other site 1208660001034 NAD(P) binding site [chemical binding]; other site 1208660001035 catalytic residues [active] 1208660001036 RTX toxin acyltransferase family; Region: HlyC; pfam02794 1208660001037 Anthrax toxin LF subunit; Region: Anthrax_toxA; pfam03497 1208660001038 RTX N-terminal domain; Region: RTX; pfam02382 1208660001039 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 1208660001040 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 1208660001041 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1208660001042 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 1208660001043 Walker A/P-loop; other site 1208660001044 ATP binding site [chemical binding]; other site 1208660001045 Q-loop/lid; other site 1208660001046 ABC transporter signature motif; other site 1208660001047 Walker B; other site 1208660001048 D-loop; other site 1208660001049 H-loop/switch region; other site 1208660001050 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1208660001051 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1208660001052 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208660001053 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1208660001055 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 1208660001056 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1208660001057 substrate binding pocket [chemical binding]; other site 1208660001058 membrane-bound complex binding site; other site 1208660001059 hinge residues; other site 1208660001061 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660001062 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660001063 putative PBP binding loops; other site 1208660001064 ABC-ATPase subunit interface; other site 1208660001065 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208660001066 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208660001067 Walker A/P-loop; other site 1208660001068 ATP binding site [chemical binding]; other site 1208660001069 Q-loop/lid; other site 1208660001070 ABC transporter signature motif; other site 1208660001071 Walker B; other site 1208660001072 D-loop; other site 1208660001073 H-loop/switch region; other site 1208660001074 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1208660001075 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 1208660001076 homodimer interface [polypeptide binding]; other site 1208660001077 substrate-cofactor binding pocket; other site 1208660001078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660001079 catalytic residue [active] 1208660001080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208660001081 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 1208660001082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660001083 NAD(P) binding site [chemical binding]; other site 1208660001084 active site 1208660001086 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208660001087 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660001088 DNA-binding site [nucleotide binding]; DNA binding site 1208660001089 FCD domain; Region: FCD; pfam07729 1208660001090 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208660001091 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1208660001092 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660001093 DNA-binding site [nucleotide binding]; DNA binding site 1208660001094 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1208660001095 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1208660001096 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1208660001097 NAD(P) binding site [chemical binding]; other site 1208660001098 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1208660001099 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208660001100 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208660001101 acyl-activating enzyme (AAE) consensus motif; other site 1208660001102 acyl-activating enzyme (AAE) consensus motif; other site 1208660001103 AMP binding site [chemical binding]; other site 1208660001104 active site 1208660001105 CoA binding site [chemical binding]; other site 1208660001106 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 1208660001107 putative active site [active] 1208660001108 Zn binding site [ion binding]; other site 1208660001109 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208660001110 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660001111 dimer interface [polypeptide binding]; other site 1208660001112 conserved gate region; other site 1208660001113 putative PBP binding loops; other site 1208660001114 ABC-ATPase subunit interface; other site 1208660001115 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208660001116 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208660001117 Walker A/P-loop; other site 1208660001118 ATP binding site [chemical binding]; other site 1208660001119 Q-loop/lid; other site 1208660001120 ABC transporter signature motif; other site 1208660001121 Walker B; other site 1208660001122 D-loop; other site 1208660001123 H-loop/switch region; other site 1208660001124 NMT1/THI5 like; Region: NMT1; pfam09084 1208660001125 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1208660001126 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1208660001127 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1208660001128 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208660001129 PYR/PP interface [polypeptide binding]; other site 1208660001130 dimer interface [polypeptide binding]; other site 1208660001131 TPP binding site [chemical binding]; other site 1208660001132 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208660001133 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 1208660001134 TPP-binding site [chemical binding]; other site 1208660001136 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 1208660001137 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660001138 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 1208660001139 putative dimerization interface [polypeptide binding]; other site 1208660001140 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660001141 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660001142 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1208660001143 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208660001144 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660001145 DNA-binding site [nucleotide binding]; DNA binding site 1208660001146 UTRA domain; Region: UTRA; pfam07702 1208660001147 Fumarase C-terminus; Region: Fumerase_C; cl00795 1208660001148 fumarate hydratase; Provisional; Region: PRK06246 1208660001149 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660001151 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1208660001152 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1208660001153 active site 1208660001154 metal binding site [ion binding]; metal-binding site 1208660001155 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660001156 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1208660001157 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660001158 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1208660001159 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1208660001160 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660001161 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660001162 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1208660001163 dimerization interface [polypeptide binding]; other site 1208660001164 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208660001165 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 1208660001166 substrate binding site [chemical binding]; other site 1208660001167 oxyanion hole (OAH) forming residues; other site 1208660001168 trimer interface [polypeptide binding]; other site 1208660001169 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 1208660001170 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1208660001171 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208660001172 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 1208660001173 putative ligand binding site [chemical binding]; other site 1208660001174 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 1208660001175 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660001176 TM-ABC transporter signature motif; other site 1208660001178 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208660001179 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208660001180 Walker A/P-loop; other site 1208660001181 ATP binding site [chemical binding]; other site 1208660001182 Q-loop/lid; other site 1208660001183 ABC transporter signature motif; other site 1208660001184 Walker B; other site 1208660001185 D-loop; other site 1208660001186 H-loop/switch region; other site 1208660001187 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208660001188 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660001189 Walker A/P-loop; other site 1208660001190 ATP binding site [chemical binding]; other site 1208660001191 Q-loop/lid; other site 1208660001192 ABC transporter signature motif; other site 1208660001193 Walker B; other site 1208660001194 D-loop; other site 1208660001195 H-loop/switch region; other site 1208660001196 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1208660001197 classical (c) SDRs; Region: SDR_c; cd05233 1208660001198 NAD(P) binding site [chemical binding]; other site 1208660001199 active site 1208660001200 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 1208660001201 short chain dehydrogenase; Provisional; Region: PRK06125 1208660001202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660001203 NAD(P) binding site [chemical binding]; other site 1208660001204 active site 1208660001205 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1208660001206 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 1208660001207 active site 1208660001208 FMN binding site [chemical binding]; other site 1208660001209 substrate binding site [chemical binding]; other site 1208660001210 homotetramer interface [polypeptide binding]; other site 1208660001211 catalytic residue [active] 1208660001212 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1208660001213 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 1208660001214 putative active site [active] 1208660001215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1208660001217 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208660001218 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 1208660001219 active site 1208660001220 phosphorylation site [posttranslational modification] 1208660001221 intermolecular recognition site; other site 1208660001222 dimerization interface [polypeptide binding]; other site 1208660001223 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 1208660001224 DNA binding site [nucleotide binding] 1208660001225 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1208660001226 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1208660001227 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 1208660001228 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1208660001229 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1208660001230 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1208660001231 tRNA; other site 1208660001232 putative tRNA binding site [nucleotide binding]; other site 1208660001233 putative NADP binding site [chemical binding]; other site 1208660001234 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1208660001235 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1208660001236 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1208660001237 RF-1 domain; Region: RF-1; pfam00472 1208660001238 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1208660001239 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 1208660001240 S-adenosylmethionine binding site [chemical binding]; other site 1208660001241 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 1208660001242 putative GSH binding site [chemical binding]; other site 1208660001243 catalytic residues [active] 1208660001244 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1208660001245 Flavoprotein; Region: Flavoprotein; pfam02441 1208660001246 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660001247 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1208660001248 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1208660001249 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1208660001250 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1208660001251 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 1208660001252 catalytic loop [active] 1208660001253 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1208660001254 iron binding site [ion binding]; other site 1208660001255 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1208660001257 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 1208660001258 putative hydrophobic ligand binding site [chemical binding]; other site 1208660001260 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1208660001261 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1208660001262 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 1208660001263 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1208660001264 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1208660001265 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1208660001266 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1208660001267 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208660001268 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660001269 Walker A/P-loop; other site 1208660001270 ATP binding site [chemical binding]; other site 1208660001271 Q-loop/lid; other site 1208660001272 ABC transporter signature motif; other site 1208660001273 Walker B; other site 1208660001274 D-loop; other site 1208660001275 H-loop/switch region; other site 1208660001276 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208660001277 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208660001278 Walker A/P-loop; other site 1208660001279 ATP binding site [chemical binding]; other site 1208660001280 Q-loop/lid; other site 1208660001281 ABC transporter signature motif; other site 1208660001282 Walker B; other site 1208660001283 D-loop; other site 1208660001284 H-loop/switch region; other site 1208660001285 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 1208660001286 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660001287 TM-ABC transporter signature motif; other site 1208660001288 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208660001289 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 1208660001290 TM-ABC transporter signature motif; other site 1208660001291 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1208660001292 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660001293 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 1208660001294 putative dimerization interface [polypeptide binding]; other site 1208660001295 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208660001296 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 1208660001297 putative ligand binding site [chemical binding]; other site 1208660001298 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208660001299 Amidase; Region: Amidase; pfam01425 1208660001300 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 1208660001301 active site clefts [active] 1208660001302 zinc binding site [ion binding]; other site 1208660001303 dimer interface [polypeptide binding]; other site 1208660001304 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 1208660001305 psiF repeat; Region: PsiF_repeat; pfam07769 1208660001306 psiF repeat; Region: PsiF_repeat; pfam07769 1208660001307 Putative cyclase; Region: Cyclase; pfam04199 1208660001308 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1208660001309 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1208660001310 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1208660001311 YciI-like protein; Reviewed; Region: PRK12863 1208660001312 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 1208660001313 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1208660001314 Coenzyme A transferase; Region: CoA_trans; cl17247 1208660001315 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1208660001316 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660001317 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660001318 short chain dehydrogenase; Provisional; Region: PRK07577 1208660001319 classical (c) SDRs; Region: SDR_c; cd05233 1208660001320 NAD(P) binding site [chemical binding]; other site 1208660001321 active site 1208660001322 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1208660001324 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1208660001325 catalytic triad [active] 1208660001326 putative active site [active] 1208660001327 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1208660001328 catalytic residues [active] 1208660001329 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001330 Autotransporter beta-domain; Region: Autotransporter; smart00869 1208660001331 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1208660001332 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1208660001333 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 1208660001334 Ligand Binding Site [chemical binding]; other site 1208660001335 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1208660001336 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208660001337 Coenzyme A binding pocket [chemical binding]; other site 1208660001338 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 1208660001339 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 1208660001340 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1208660001341 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1208660001342 putative ligand binding site [chemical binding]; other site 1208660001343 NAD binding site [chemical binding]; other site 1208660001344 dimerization interface [polypeptide binding]; other site 1208660001345 catalytic site [active] 1208660001346 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1208660001347 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 1208660001348 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1208660001349 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1208660001350 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1208660001352 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1208660001353 active site 1208660001354 catalytic residues [active] 1208660001355 metal binding site [ion binding]; metal-binding site 1208660001356 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1208660001357 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1208660001358 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208660001359 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1208660001360 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 1208660001361 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 1208660001362 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 1208660001363 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1208660001364 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1208660001365 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1208660001366 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1208660001367 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1208660001368 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1208660001369 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208660001370 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660001371 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660001372 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 1208660001373 putative effector binding pocket; other site 1208660001374 putative dimerization interface [polypeptide binding]; other site 1208660001375 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1208660001376 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1208660001377 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1208660001378 voltage-gated potassium channel; Provisional; Region: PRK10537 1208660001379 Ion channel; Region: Ion_trans_2; pfam07885 1208660001380 TrkA-N domain; Region: TrkA_N; pfam02254 1208660001381 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 1208660001382 homotrimer interaction site [polypeptide binding]; other site 1208660001383 putative active site [active] 1208660001384 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 1208660001385 GSH binding site (G-site) [chemical binding]; other site 1208660001386 C-terminal domain interface [polypeptide binding]; other site 1208660001387 dimer interface [polypeptide binding]; other site 1208660001388 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 1208660001389 dimer interface [polypeptide binding]; other site 1208660001390 N-terminal domain interface [polypeptide binding]; other site 1208660001391 substrate binding pocket (H-site) [chemical binding]; other site 1208660001392 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1208660001393 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1208660001394 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1208660001395 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1208660001396 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 1208660001397 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1208660001398 dimer interface [polypeptide binding]; other site 1208660001399 active site 1208660001400 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1208660001401 substrate binding site [chemical binding]; other site 1208660001402 catalytic residue [active] 1208660001403 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1208660001404 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 1208660001405 motif II; other site 1208660001407 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1208660001408 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001409 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001410 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001411 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001412 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001413 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001414 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001415 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001416 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001417 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001418 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001419 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001420 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001421 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001422 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001423 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001424 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001425 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660001426 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 1208660001427 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208660001428 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208660001429 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 1208660001430 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660001432 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660001433 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660001434 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660001435 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208660001436 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 1208660001437 substrate binding site [chemical binding]; other site 1208660001438 oxyanion hole (OAH) forming residues; other site 1208660001439 trimer interface [polypeptide binding]; other site 1208660001440 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1208660001441 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660001442 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1208660001443 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1208660001444 NADP binding site [chemical binding]; other site 1208660001445 dimer interface [polypeptide binding]; other site 1208660001446 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660001447 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660001449 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 1208660001450 putative active site [active] 1208660001451 putative catalytic site [active] 1208660001452 mesaconyl-CoA isomerase; Region: mesacon_CoA_iso; TIGR04253 1208660001453 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660001454 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660001455 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660001456 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660001457 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 1208660001458 putative effector binding pocket; other site 1208660001459 putative dimerization interface [polypeptide binding]; other site 1208660001460 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 1208660001461 homotrimer interaction site [polypeptide binding]; other site 1208660001462 putative active site [active] 1208660001464 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1208660001465 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208660001466 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660001467 DNA-binding site [nucleotide binding]; DNA binding site 1208660001468 FCD domain; Region: FCD; pfam07729 1208660001469 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 1208660001470 DNA-binding site [nucleotide binding]; DNA binding site 1208660001471 RNA-binding motif; other site 1208660001472 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660001473 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660001474 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 1208660001475 putative dimerization interface [polypeptide binding]; other site 1208660001477 Sulfatase; Region: Sulfatase; cl17466 1208660001478 choline-sulfatase; Region: chol_sulfatase; TIGR03417 1208660001479 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 1208660001481 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660001483 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1208660001484 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1208660001485 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1208660001487 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660001488 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660001490 SIR2-like domain; Region: SIR2_2; pfam13289 1208660001491 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 1208660001496 heat shock protein 90; Provisional; Region: PRK05218 1208660001497 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 1208660001498 ATP binding site [chemical binding]; other site 1208660001499 Mg2+ binding site [ion binding]; other site 1208660001500 G-X-G motif; other site 1208660001501 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1208660001502 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 1208660001503 putative C-terminal domain interface [polypeptide binding]; other site 1208660001504 putative GSH binding site (G-site) [chemical binding]; other site 1208660001505 putative dimer interface [polypeptide binding]; other site 1208660001506 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1208660001507 putative N-terminal domain interface [polypeptide binding]; other site 1208660001508 putative dimer interface [polypeptide binding]; other site 1208660001509 putative substrate binding pocket (H-site) [chemical binding]; other site 1208660001510 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1208660001511 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 1208660001512 amidase catalytic site [active] 1208660001513 Zn binding residues [ion binding]; other site 1208660001514 substrate binding site [chemical binding]; other site 1208660001515 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1208660001516 signal recognition particle protein; Provisional; Region: PRK10867 1208660001517 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1208660001518 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 1208660001519 GTP binding site [chemical binding]; other site 1208660001520 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1208660001521 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1208660001522 BON domain; Region: BON; pfam04972 1208660001523 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1208660001524 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1208660001525 thiS-thiF/thiG interaction site; other site 1208660001526 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1208660001527 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1208660001528 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660001529 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660001530 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 1208660001531 putative dimerization interface [polypeptide binding]; other site 1208660001533 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1208660001534 active site 1208660001535 catalytic residues [active] 1208660001536 metal binding site [ion binding]; metal-binding site 1208660001537 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660001538 integrase; Provisional; Region: PRK09692 1208660001539 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1208660001540 active site 1208660001541 Int/Topo IB signature motif; other site 1208660001542 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1208660001543 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 1208660001544 non-specific DNA binding site [nucleotide binding]; other site 1208660001545 salt bridge; other site 1208660001546 sequence-specific DNA binding site [nucleotide binding]; other site 1208660001547 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1208660001548 Putative helicase; Region: TraI_2; pfam07514 1208660001549 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1208660001550 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1208660001551 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1208660001552 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 1208660001553 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 1208660001554 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1208660001555 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1208660001556 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1208660001557 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 1208660001558 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1208660001559 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1208660001560 catalytic residues [active] 1208660001561 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1208660001562 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1208660001563 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1208660001564 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1208660001565 Protein of unknown function (DUF904); Region: DUF904; pfam06005 1208660001566 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 1208660001567 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 1208660001568 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 1208660001569 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 1208660001570 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 1208660001572 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660001573 AAA domain; Region: AAA_23; pfam13476 1208660001574 Walker A/P-loop; other site 1208660001575 ATP binding site [chemical binding]; other site 1208660001576 AAA domain; Region: AAA_21; pfam13304 1208660001577 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1208660001578 Walker B; other site 1208660001579 D-loop; other site 1208660001580 H-loop/switch region; other site 1208660001581 Domain of unknown function DUF87; Region: DUF87; pfam01935 1208660001582 Domain of unknown function DUF87; Region: DUF87; pfam01935 1208660001583 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1208660001584 TIGR02687 family protein; Region: TIGR02687 1208660001585 PglZ domain; Region: PglZ; pfam08665 1208660001586 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 1208660001587 MIT_C; domain found C-terminal to MIT (contained within Microtubule Interacting and Trafficking molecules) domains, as well as in some bacterial proteins. The function of this domain is unknown; Region: MIT_C; cd02685 1208660001588 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660001589 Walker A/P-loop; other site 1208660001590 ATP binding site [chemical binding]; other site 1208660001591 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660001592 ABC transporter signature motif; other site 1208660001593 Walker B; other site 1208660001594 D-loop; other site 1208660001595 H-loop/switch region; other site 1208660001596 exonuclease subunit SbcD; Provisional; Region: PRK10966 1208660001597 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1208660001598 active site 1208660001599 metal binding site [ion binding]; metal-binding site 1208660001600 DNA binding site [nucleotide binding] 1208660001601 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1208660001602 exonuclease subunit SbcC; Provisional; Region: PRK10246 1208660001603 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660001604 Walker A/P-loop; other site 1208660001605 ATP binding site [chemical binding]; other site 1208660001606 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1208660001607 ABC transporter signature motif; other site 1208660001608 Walker B; other site 1208660001609 D-loop; other site 1208660001610 H-loop/switch region; other site 1208660001611 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 1208660001612 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1208660001613 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 1208660001614 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 1208660001615 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1208660001616 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1208660001617 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1208660001618 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 1208660001619 nucleotide binding region [chemical binding]; other site 1208660001620 ATP-binding site [chemical binding]; other site 1208660001621 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 1208660001622 S-adenosylmethionine binding site [chemical binding]; other site 1208660001623 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 1208660001624 DNA topoisomerase III; Provisional; Region: PRK07726 1208660001625 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 1208660001626 active site 1208660001627 putative interdomain interaction site [polypeptide binding]; other site 1208660001628 putative metal-binding site [ion binding]; other site 1208660001629 putative nucleotide binding site [chemical binding]; other site 1208660001630 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 1208660001631 domain I; other site 1208660001632 DNA binding groove [nucleotide binding] 1208660001633 phosphate binding site [ion binding]; other site 1208660001634 domain II; other site 1208660001635 domain III; other site 1208660001636 nucleotide binding site [chemical binding]; other site 1208660001637 catalytic site [active] 1208660001638 domain IV; other site 1208660001639 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1208660001640 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1208660001641 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 1208660001642 dimer interface [polypeptide binding]; other site 1208660001643 ssDNA binding site [nucleotide binding]; other site 1208660001644 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1208660001645 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 1208660001646 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1208660001647 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1208660001648 ParB-like nuclease domain; Region: ParBc; pfam02195 1208660001649 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1208660001650 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 1208660001651 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 1208660001652 Magnesium ion binding site [ion binding]; other site 1208660001653 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660001654 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660001655 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 1208660001656 dimerization interface [polypeptide binding]; other site 1208660001657 substrate binding pocket [chemical binding]; other site 1208660001658 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1208660001659 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660001660 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660001661 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 1208660001662 dimerization interface [polypeptide binding]; other site 1208660001663 substrate binding pocket [chemical binding]; other site 1208660001664 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660001665 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660001666 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660001667 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1208660001668 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660001669 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660001670 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1208660001671 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660001672 pyruvate carboxylase; Reviewed; Region: PRK12999 1208660001673 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1208660001674 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208660001675 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1208660001676 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1208660001677 active site 1208660001678 catalytic residues [active] 1208660001679 metal binding site [ion binding]; metal-binding site 1208660001680 homodimer binding site [polypeptide binding]; other site 1208660001681 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 1208660001682 carboxyltransferase (CT) interaction site; other site 1208660001683 biotinylation site [posttranslational modification]; other site 1208660001684 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208660001685 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208660001686 active site 1208660001687 enoyl-CoA hydratase; Region: PLN02864 1208660001688 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 1208660001689 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 1208660001690 dimer interaction site [polypeptide binding]; other site 1208660001691 substrate-binding tunnel; other site 1208660001692 active site 1208660001693 catalytic site [active] 1208660001694 substrate binding site [chemical binding]; other site 1208660001695 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1208660001696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660001697 NAD(P) binding site [chemical binding]; other site 1208660001698 active site 1208660001699 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 1208660001700 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 1208660001701 dimer interface [polypeptide binding]; other site 1208660001702 active site 1208660001703 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 1208660001704 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1208660001705 Uncharacterized acyl-CoA synthetase subfamily similar to Acetoacetyl-CoA synthetase; Region: AACS_like; cd05968 1208660001706 acyl-activating enzyme (AAE) consensus motif; other site 1208660001707 putative AMP binding site [chemical binding]; other site 1208660001708 putative active site [active] 1208660001709 putative CoA binding site [chemical binding]; other site 1208660001710 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208660001711 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660001712 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660001713 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660001714 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660001715 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660001716 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660001717 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 1208660001718 putative dimerization interface [polypeptide binding]; other site 1208660001719 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208660001720 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1208660001721 active site 1208660001722 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 1208660001723 Ligand binding site [chemical binding]; other site 1208660001724 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1208660001725 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1208660001726 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 1208660001727 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1208660001728 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1208660001729 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 1208660001730 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 1208660001731 active site 2 [active] 1208660001732 active site 1 [active] 1208660001733 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660001734 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660001735 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 1208660001736 putative substrate binding pocket [chemical binding]; other site 1208660001737 putative dimerization interface [polypeptide binding]; other site 1208660001738 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1208660001739 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660001740 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660001741 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660001742 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660001744 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208660001745 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 1208660001746 substrate binding site [chemical binding]; other site 1208660001747 oxyanion hole (OAH) forming residues; other site 1208660001748 trimer interface [polypeptide binding]; other site 1208660001749 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 1208660001750 putative FMN binding site [chemical binding]; other site 1208660001751 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660001752 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660001753 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1208660001754 active site 1208660001755 metal binding site [ion binding]; metal-binding site 1208660001756 enoyl-CoA hydratase; Provisional; Region: PRK08252 1208660001757 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 1208660001758 substrate binding site [chemical binding]; other site 1208660001759 oxyanion hole (OAH) forming residues; other site 1208660001760 trimer interface [polypeptide binding]; other site 1208660001761 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660001762 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660001763 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660001764 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1208660001765 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1208660001766 active site 1208660001767 NAD binding site [chemical binding]; other site 1208660001768 metal binding site [ion binding]; metal-binding site 1208660001769 enoyl-CoA hydratase; Provisional; Region: PRK06688 1208660001770 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 1208660001771 substrate binding site [chemical binding]; other site 1208660001772 oxyanion hole (OAH) forming residues; other site 1208660001773 trimer interface [polypeptide binding]; other site 1208660001774 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208660001775 Amidase; Region: Amidase; cl11426 1208660001776 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1208660001777 NAD(P)+ dependent aldehyde dehydrogenase family; Region: ALDH; cd07078 1208660001778 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208660001779 NAD(P) binding site [chemical binding]; other site 1208660001780 catalytic residues [active] 1208660001781 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 1208660001782 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1208660001783 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208660001784 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660001785 dimer interface [polypeptide binding]; other site 1208660001786 conserved gate region; other site 1208660001787 putative PBP binding loops; other site 1208660001788 ABC-ATPase subunit interface; other site 1208660001789 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208660001790 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208660001791 Walker A/P-loop; other site 1208660001792 ATP binding site [chemical binding]; other site 1208660001793 Q-loop/lid; other site 1208660001794 ABC transporter signature motif; other site 1208660001795 Walker B; other site 1208660001796 D-loop; other site 1208660001797 H-loop/switch region; other site 1208660001798 NMT1/THI5 like; Region: NMT1; pfam09084 1208660001799 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1208660001800 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1208660001801 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1208660001802 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660001803 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660001804 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660001805 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 1208660001806 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1208660001807 ligand binding site [chemical binding]; other site 1208660001808 flexible hinge region; other site 1208660001809 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 1208660001810 putative switch regulator; other site 1208660001811 non-specific DNA interactions [nucleotide binding]; other site 1208660001812 DNA binding site [nucleotide binding] 1208660001813 sequence specific DNA binding site [nucleotide binding]; other site 1208660001814 putative cAMP binding site [chemical binding]; other site 1208660001815 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208660001816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660001817 NAD(P) binding site [chemical binding]; other site 1208660001818 active site 1208660001819 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660001820 HipA N-terminal domain; Region: Couple_hipA; cl11853 1208660001821 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1208660001822 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1208660001823 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1208660001824 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 1208660001825 non-specific DNA binding site [nucleotide binding]; other site 1208660001826 salt bridge; other site 1208660001827 sequence-specific DNA binding site [nucleotide binding]; other site 1208660001828 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660001829 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660001830 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660001833 Putative cyclase; Region: Cyclase; cl00814 1208660001834 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 1208660001835 active site 2 [active] 1208660001836 active site 1 [active] 1208660001838 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208660001839 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 1208660001840 substrate binding site [chemical binding]; other site 1208660001841 oxyanion hole (OAH) forming residues; other site 1208660001842 trimer interface [polypeptide binding]; other site 1208660001843 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 1208660001844 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1208660001845 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208660001846 FAD binding site [chemical binding]; other site 1208660001847 substrate binding pocket [chemical binding]; other site 1208660001848 catalytic base [active] 1208660001849 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208660001850 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 1208660001851 substrate binding site [chemical binding]; other site 1208660001852 oxyanion hole (OAH) forming residues; other site 1208660001853 trimer interface [polypeptide binding]; other site 1208660001854 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1208660001855 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 1208660001856 dimer interface [polypeptide binding]; other site 1208660001857 active site 1208660001858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208660001859 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1208660001860 CoA binding domain; Region: CoA_binding_2; pfam13380 1208660001861 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1208660001862 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1208660001863 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208660001864 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660001865 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 1208660001866 dimerization interface [polypeptide binding]; other site 1208660001867 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1208660001868 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208660001869 Amino acid synthesis; Region: AA_synth; pfam06684 1208660001870 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1208660001871 glutathionine S-transferase; Provisional; Region: PRK10542 1208660001872 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 1208660001873 C-terminal domain interface [polypeptide binding]; other site 1208660001874 GSH binding site (G-site) [chemical binding]; other site 1208660001875 dimer interface [polypeptide binding]; other site 1208660001876 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1208660001877 dimer interface [polypeptide binding]; other site 1208660001878 N-terminal domain interface [polypeptide binding]; other site 1208660001879 substrate binding pocket (H-site) [chemical binding]; other site 1208660001880 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660001881 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208660001882 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208660001883 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660001884 DNA-binding site [nucleotide binding]; DNA binding site 1208660001885 FCD domain; Region: FCD; pfam07729 1208660001886 aldehyde dehydrogenase family 7 member; Region: PLN02315 1208660001887 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1208660001888 NAD(P) binding site [chemical binding]; other site 1208660001889 catalytic residues [active] 1208660001891 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 1208660001892 homotrimer interaction site [polypeptide binding]; other site 1208660001893 putative active site [active] 1208660001895 Uncharacterized conserved protein [Function unknown]; Region: COG5276 1208660001896 LVIVD repeat; Region: LVIVD; pfam08309 1208660001897 LVIVD repeat; Region: LVIVD; pfam08309 1208660001898 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1208660001899 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 1208660001900 P-loop, Walker A motif; other site 1208660001901 Base recognition motif; other site 1208660001902 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1208660001903 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1208660001904 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 1208660001905 structural tetrad; other site 1208660001906 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660001907 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660001908 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660001909 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1208660001910 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1208660001911 inhibitor site; inhibition site 1208660001912 active site 1208660001913 dimer interface [polypeptide binding]; other site 1208660001914 catalytic residue [active] 1208660001915 aspartate aminotransferase; Provisional; Region: PRK05764 1208660001916 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 1208660001917 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660001918 homodimer interface [polypeptide binding]; other site 1208660001919 catalytic residue [active] 1208660001920 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 1208660001921 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1208660001922 substrate binding pocket [chemical binding]; other site 1208660001923 membrane-bound complex binding site; other site 1208660001924 hinge residues; other site 1208660001925 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660001926 dimer interface [polypeptide binding]; other site 1208660001927 conserved gate region; other site 1208660001928 putative PBP binding loops; other site 1208660001929 ABC-ATPase subunit interface; other site 1208660001930 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208660001931 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208660001932 Walker A/P-loop; other site 1208660001933 ATP binding site [chemical binding]; other site 1208660001934 Q-loop/lid; other site 1208660001935 ABC transporter signature motif; other site 1208660001936 Walker B; other site 1208660001937 D-loop; other site 1208660001938 H-loop/switch region; other site 1208660001939 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1208660001940 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1208660001941 metal binding site [ion binding]; metal-binding site 1208660001942 putative dimer interface [polypeptide binding]; other site 1208660001943 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1208660001944 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660001945 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660001946 allantoate amidohydrolase; Reviewed; Region: PRK12892 1208660001947 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1208660001948 active site 1208660001949 metal binding site [ion binding]; metal-binding site 1208660001950 dimer interface [polypeptide binding]; other site 1208660001951 amidase; Provisional; Region: PRK07487 1208660001952 Amidase; Region: Amidase; cl11426 1208660001953 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1208660001954 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1208660001955 active site 1208660001956 catalytic site [active] 1208660001957 tetramer interface [polypeptide binding]; other site 1208660001958 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1208660001959 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1208660001960 DctM-like transporters; Region: DctM; pfam06808 1208660001961 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208660001962 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208660001963 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208660001964 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660001965 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660001966 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 1208660001967 putative dimerization interface [polypeptide binding]; other site 1208660001968 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208660001969 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660001970 FCD domain; Region: FCD; pfam07729 1208660001971 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1208660001972 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1208660001973 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1208660001974 DctM-like transporters; Region: DctM; pfam06808 1208660001975 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208660001978 Benzoate membrane transport protein; Region: BenE; pfam03594 1208660001979 benzoate transporter; Region: benE; TIGR00843 1208660001980 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1208660001981 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1208660001982 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1208660001983 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1208660001984 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1208660001985 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1208660001986 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1208660001987 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1208660001988 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660001989 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660001990 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 1208660001991 putative dimerization interface [polypeptide binding]; other site 1208660001992 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208660001993 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660001994 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660001995 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1208660001996 active site 1208660001997 catalytic residues [active] 1208660001998 metal binding site [ion binding]; metal-binding site 1208660001999 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660002000 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660002001 Isochorismatase family; Region: Isochorismatase; pfam00857 1208660002002 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 1208660002003 catalytic triad [active] 1208660002004 conserved cis-peptide bond; other site 1208660002005 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660002006 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1208660002007 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 1208660002008 tetramer interface [polypeptide binding]; other site 1208660002009 active site 1208660002010 Mg2+/Mn2+ binding site [ion binding]; other site 1208660002011 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208660002012 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208660002013 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208660002014 DctM-like transporters; Region: DctM; pfam06808 1208660002015 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1208660002016 Strictosidine synthase; Region: Str_synth; pfam03088 1208660002017 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 1208660002018 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1208660002019 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660002020 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 1208660002021 putative DNA binding site [nucleotide binding]; other site 1208660002022 putative Zn2+ binding site [ion binding]; other site 1208660002023 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660002024 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660002025 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1208660002026 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 1208660002027 catalytic loop [active] 1208660002028 iron binding site [ion binding]; other site 1208660002029 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 1208660002030 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 1208660002031 FAD binding pocket [chemical binding]; other site 1208660002032 FAD binding motif [chemical binding]; other site 1208660002033 phosphate binding motif [ion binding]; other site 1208660002034 beta-alpha-beta structure motif; other site 1208660002035 NAD binding pocket [chemical binding]; other site 1208660002036 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 1208660002037 iron-sulfur cluster [ion binding]; other site 1208660002038 [2Fe-2S] cluster binding site [ion binding]; other site 1208660002039 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 1208660002040 beta subunit interface [polypeptide binding]; other site 1208660002041 alpha subunit interface [polypeptide binding]; other site 1208660002042 active site 1208660002043 substrate binding site [chemical binding]; other site 1208660002044 Fe binding site [ion binding]; other site 1208660002045 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1208660002046 classical (c) SDRs; Region: SDR_c; cd05233 1208660002047 NAD(P) binding site [chemical binding]; other site 1208660002048 active site 1208660002050 hypothetical protein; Provisional; Region: PRK06126 1208660002051 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1208660002052 hypothetical protein; Provisional; Region: PRK07236 1208660002053 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660002054 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, N-terminal subunit; Region: HpaG-N-term; TIGR02305 1208660002055 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 1208660002056 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1208660002058 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 1208660002059 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1208660002060 putative active site [active] 1208660002061 putative metal binding site [ion binding]; other site 1208660002062 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 1208660002063 putative substrate binding pocket [chemical binding]; other site 1208660002064 trimer interface [polypeptide binding]; other site 1208660002065 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 1208660002066 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase; Region: HpaI; TIGR02311 1208660002067 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 1208660002068 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660002069 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 1208660002070 dimerization interface [polypeptide binding]; other site 1208660002071 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660002075 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1208660002076 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 1208660002077 non-specific DNA binding site [nucleotide binding]; other site 1208660002078 salt bridge; other site 1208660002079 sequence-specific DNA binding site [nucleotide binding]; other site 1208660002080 Cupin domain; Region: Cupin_2; pfam07883 1208660002081 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660002082 enoyl-CoA hydratase; Provisional; Region: PRK09245 1208660002083 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 1208660002084 substrate binding site [chemical binding]; other site 1208660002085 oxyanion hole (OAH) forming residues; other site 1208660002086 trimer interface [polypeptide binding]; other site 1208660002087 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660002088 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 1208660002089 NAD(P) binding site [chemical binding]; other site 1208660002090 active site 1208660002091 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660002092 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660002093 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1208660002094 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208660002095 acyl-activating enzyme (AAE) consensus motif; other site 1208660002096 AMP binding site [chemical binding]; other site 1208660002097 active site 1208660002098 CoA binding site [chemical binding]; other site 1208660002099 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660002100 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660002101 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208660002102 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208660002103 active site 1208660002104 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208660002105 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 1208660002106 TM-ABC transporter signature motif; other site 1208660002107 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660002108 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 1208660002109 TM-ABC transporter signature motif; other site 1208660002110 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208660002111 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660002112 Walker A/P-loop; other site 1208660002113 ATP binding site [chemical binding]; other site 1208660002114 Q-loop/lid; other site 1208660002115 ABC transporter signature motif; other site 1208660002116 Walker B; other site 1208660002117 D-loop; other site 1208660002118 H-loop/switch region; other site 1208660002119 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208660002120 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208660002121 Walker A/P-loop; other site 1208660002122 ATP binding site [chemical binding]; other site 1208660002123 Q-loop/lid; other site 1208660002124 ABC transporter signature motif; other site 1208660002125 Walker B; other site 1208660002126 D-loop; other site 1208660002127 H-loop/switch region; other site 1208660002128 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208660002129 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 1208660002130 ligand binding site [chemical binding]; other site 1208660002131 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660002132 NAD(P) binding site [chemical binding]; other site 1208660002133 active site 1208660002134 enoyl-CoA hydratase; Provisional; Region: PRK08252 1208660002135 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 1208660002136 substrate binding site [chemical binding]; other site 1208660002137 oxyanion hole (OAH) forming residues; other site 1208660002138 trimer interface [polypeptide binding]; other site 1208660002139 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1208660002140 DUF35 OB-fold domain; Region: DUF35; pfam01796 1208660002141 thiolase; Provisional; Region: PRK06158 1208660002142 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 1208660002143 active site 1208660002144 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 1208660002145 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 1208660002146 dimer interaction site [polypeptide binding]; other site 1208660002147 substrate-binding tunnel; other site 1208660002148 active site 1208660002149 catalytic site [active] 1208660002150 substrate binding site [chemical binding]; other site 1208660002151 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 1208660002152 NAD(P) binding site [chemical binding]; other site 1208660002153 active site 1208660002154 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660002155 Putative cyclase; Region: Cyclase; pfam04199 1208660002156 Putative cyclase; Region: Cyclase; cl00814 1208660002159 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1208660002160 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1208660002163 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1208660002164 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1208660002165 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1208660002166 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1208660002167 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1208660002168 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 1208660002169 Walker A motif; other site 1208660002170 ATP binding site [chemical binding]; other site 1208660002171 Walker B motif; other site 1208660002172 AAA domain; Region: AAA_22; pfam13401 1208660002173 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1208660002175 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1208660002176 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1208660002178 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1208660002179 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 1208660002180 Walker A motif; other site 1208660002181 ATP binding site [chemical binding]; other site 1208660002182 Walker B motif; other site 1208660002183 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1208660002184 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 1208660002185 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1208660002186 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1208660002187 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1208660002188 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1208660002189 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1208660002190 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 1208660002191 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1208660002192 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1208660002195 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1208660002196 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1208660002197 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 1208660002199 Uncharacterized protein conserved in bacteria (DUF2195); Region: DUF2195; pfam09961 1208660002200 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1208660002201 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 1208660002202 Walker A motif; other site 1208660002203 ATP binding site [chemical binding]; other site 1208660002204 Walker B motif; other site 1208660002205 arginine finger; other site 1208660002206 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 1208660002207 Walker A motif; other site 1208660002208 ATP binding site [chemical binding]; other site 1208660002209 Walker B motif; other site 1208660002210 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1208660002212 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 1208660002213 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1208660002214 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1208660002215 hypothetical protein; Provisional; Region: PRK07033 1208660002216 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1208660002217 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1208660002218 ligand binding site [chemical binding]; other site 1208660002219 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1208660002220 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1208660002221 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1208660002222 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 1208660002224 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 1208660002225 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 1208660002226 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1208660002227 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1208660002228 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1208660002229 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 1208660002230 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208660002231 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208660002232 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1208660002233 putative active site [active] 1208660002234 catalytic site [active] 1208660002235 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1208660002236 PLD-like domain; Region: PLDc_2; pfam13091 1208660002237 putative active site [active] 1208660002238 catalytic site [active] 1208660002239 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 1208660002240 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660002241 Walker A/P-loop; other site 1208660002242 ATP binding site [chemical binding]; other site 1208660002243 Q-loop/lid; other site 1208660002244 ABC transporter signature motif; other site 1208660002245 Walker B; other site 1208660002246 D-loop; other site 1208660002247 H-loop/switch region; other site 1208660002248 TOBE domain; Region: TOBE; cl01440 1208660002249 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1208660002250 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660002251 dimer interface [polypeptide binding]; other site 1208660002252 conserved gate region; other site 1208660002253 putative PBP binding loops; other site 1208660002254 ABC-ATPase subunit interface; other site 1208660002255 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1208660002256 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1208660002257 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1208660002258 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1208660002261 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208660002262 AsnC family; Region: AsnC_trans_reg; pfam01037 1208660002265 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208660002266 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 1208660002267 active site 1208660002268 intermolecular recognition site; other site 1208660002269 dimerization interface [polypeptide binding]; other site 1208660002270 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 1208660002271 DNA binding site [nucleotide binding] 1208660002272 META domain; Region: META; pfam03724 1208660002273 META domain; Region: META; pfam03724 1208660002274 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 1208660002275 rhodanese superfamily protein; Provisional; Region: PRK05320 1208660002276 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1208660002277 active site residue [active] 1208660002278 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1208660002279 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1208660002280 active site 1208660002281 HIGH motif; other site 1208660002282 KMSKS motif; other site 1208660002283 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1208660002284 tRNA binding surface [nucleotide binding]; other site 1208660002285 anticodon binding site; other site 1208660002286 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 1208660002287 dimer interface [polypeptide binding]; other site 1208660002288 putative tRNA-binding site [nucleotide binding]; other site 1208660002289 Domain of unknown function DUF59; Region: DUF59; cl00941 1208660002290 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 1208660002291 Walker A motif; other site 1208660002292 Surface antigen; Region: Bac_surface_Ag; pfam01103 1208660002293 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1208660002294 Family of unknown function (DUF490); Region: DUF490; pfam04357 1208660002295 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1208660002296 trimer interface [polypeptide binding]; other site 1208660002297 active site 1208660002298 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 1208660002299 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208660002300 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 1208660002301 active site 1208660002302 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1208660002303 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208660002304 Coenzyme A binding pocket [chemical binding]; other site 1208660002305 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1208660002306 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1208660002307 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 1208660002308 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208660002309 catalytic residue [active] 1208660002310 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1208660002311 HI0933-like protein; Region: HI0933_like; pfam03486 1208660002312 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1208660002313 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1208660002314 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1208660002315 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1208660002316 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1208660002317 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1208660002318 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 1208660002319 lipoyl attachment site [posttranslational modification]; other site 1208660002320 glycine dehydrogenase; Provisional; Region: PRK05367 1208660002321 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 1208660002322 tetramer interface [polypeptide binding]; other site 1208660002323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660002324 catalytic residue [active] 1208660002325 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 1208660002326 tetramer interface [polypeptide binding]; other site 1208660002327 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660002328 catalytic residue [active] 1208660002331 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1208660002332 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660002333 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208660002334 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 1208660002335 substrate binding site [chemical binding]; other site 1208660002336 oxyanion hole (OAH) forming residues; other site 1208660002337 trimer interface [polypeptide binding]; other site 1208660002338 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1208660002339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1208660002340 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1208660002342 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1208660002343 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1208660002344 MlrC C-terminus; Region: MlrC_C; pfam07171 1208660002345 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1208660002346 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660002347 Walker A/P-loop; other site 1208660002348 ATP binding site [chemical binding]; other site 1208660002349 Q-loop/lid; other site 1208660002350 ABC transporter signature motif; other site 1208660002351 Walker B; other site 1208660002352 D-loop; other site 1208660002353 H-loop/switch region; other site 1208660002354 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208660002355 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660002356 Walker A/P-loop; other site 1208660002357 ATP binding site [chemical binding]; other site 1208660002358 Q-loop/lid; other site 1208660002359 ABC transporter signature motif; other site 1208660002360 Walker B; other site 1208660002361 D-loop; other site 1208660002362 H-loop/switch region; other site 1208660002363 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208660002364 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1208660002365 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660002366 dimer interface [polypeptide binding]; other site 1208660002367 conserved gate region; other site 1208660002368 putative PBP binding loops; other site 1208660002369 ABC-ATPase subunit interface; other site 1208660002370 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208660002371 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660002372 dimer interface [polypeptide binding]; other site 1208660002373 conserved gate region; other site 1208660002374 putative PBP binding loops; other site 1208660002375 ABC-ATPase subunit interface; other site 1208660002376 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 1208660002377 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1208660002378 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1208660002379 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1208660002380 tetrameric interface [polypeptide binding]; other site 1208660002381 NAD binding site [chemical binding]; other site 1208660002382 catalytic residues [active] 1208660002383 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1208660002384 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 1208660002385 inhibitor-cofactor binding pocket; inhibition site 1208660002386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660002387 catalytic residue [active] 1208660002388 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660002389 DNA-binding site [nucleotide binding]; DNA binding site 1208660002390 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 1208660002391 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 1208660002392 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660002393 homodimer interface [polypeptide binding]; other site 1208660002394 catalytic residue [active] 1208660002395 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1208660002396 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 1208660002397 folate binding site [chemical binding]; other site 1208660002398 NADP+ binding site [chemical binding]; other site 1208660002399 thymidylate synthase; Provisional; Region: thyA; PRK13821 1208660002400 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 1208660002401 dimerization interface [polypeptide binding]; other site 1208660002402 active site 1208660002403 OsmC-like protein; Region: OsmC; cl00767 1208660002404 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1208660002405 diiron binding motif [ion binding]; other site 1208660002406 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 1208660002407 Mg++ binding site [ion binding]; other site 1208660002408 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1208660002409 putative catalytic motif [active] 1208660002410 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1208660002411 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 1208660002412 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1208660002413 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1208660002414 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 1208660002415 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 1208660002416 NAD binding site [chemical binding]; other site 1208660002417 substrate binding site [chemical binding]; other site 1208660002418 homodimer interface [polypeptide binding]; other site 1208660002419 active site 1208660002420 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1208660002421 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208660002422 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 1208660002423 putative ADP-binding pocket [chemical binding]; other site 1208660002424 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1208660002425 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 1208660002426 active site 1208660002427 dimer interface [polypeptide binding]; other site 1208660002428 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 1208660002429 Ligand Binding Site [chemical binding]; other site 1208660002430 Molecular Tunnel; other site 1208660002431 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 1208660002432 putative ADP-binding pocket [chemical binding]; other site 1208660002433 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208660002434 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 1208660002435 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 1208660002436 putative ADP-binding pocket [chemical binding]; other site 1208660002437 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 1208660002438 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208660002439 putative ADP-binding pocket [chemical binding]; other site 1208660002440 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1208660002441 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 1208660002442 active site 1208660002443 dimer interface [polypeptide binding]; other site 1208660002444 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 1208660002445 dimer interface [polypeptide binding]; other site 1208660002446 active site 1208660002447 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1208660002448 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 1208660002449 active site 1208660002450 substrate binding site [chemical binding]; other site 1208660002451 metal binding site [ion binding]; metal-binding site 1208660002452 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208660002453 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 1208660002454 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1208660002455 FAD binding domain; Region: FAD_binding_4; pfam01565 1208660002456 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208660002457 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 1208660002458 active site 1208660002459 phosphorylation site [posttranslational modification] 1208660002460 intermolecular recognition site; other site 1208660002461 dimerization interface [polypeptide binding]; other site 1208660002462 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 1208660002463 DNA binding site [nucleotide binding] 1208660002464 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1208660002465 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 1208660002466 dimer interface [polypeptide binding]; other site 1208660002467 phosphorylation site [posttranslational modification] 1208660002468 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 1208660002469 ATP binding site [chemical binding]; other site 1208660002470 Mg2+ binding site [ion binding]; other site 1208660002471 G-X-G motif; other site 1208660002472 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1208660002473 Sulfatase; Region: Sulfatase; pfam00884 1208660002474 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 1208660002475 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 1208660002476 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1208660002477 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1208660002478 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1208660002479 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660002480 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 1208660002481 substrate binding pocket [chemical binding]; other site 1208660002482 dimerization interface [polypeptide binding]; other site 1208660002483 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 1208660002484 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 1208660002485 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1208660002486 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1208660002488 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1208660002489 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1208660002490 DNA binding site [nucleotide binding] 1208660002491 putative catalytic residues [active] 1208660002492 turnover-facilitating residue; other site 1208660002493 intercalation triad [nucleotide binding]; other site 1208660002494 8OG recognition residue [nucleotide binding]; other site 1208660002495 putative reading head residues; other site 1208660002496 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1208660002497 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1208660002498 TPR repeat; Region: TPR_11; pfam13414 1208660002499 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 1208660002500 binding surface 1208660002501 TPR motif; other site 1208660002502 TPR repeat; Region: TPR_11; pfam13414 1208660002503 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1208660002504 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1208660002505 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1208660002506 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1208660002507 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1208660002508 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1208660002509 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1208660002510 active site 1208660002511 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1208660002512 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1208660002513 5S rRNA interface [nucleotide binding]; other site 1208660002514 CTC domain interface [polypeptide binding]; other site 1208660002515 L16 interface [polypeptide binding]; other site 1208660002516 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 1208660002517 putative active site [active] 1208660002518 catalytic residue [active] 1208660002519 GTP-binding protein YchF; Reviewed; Region: PRK09601 1208660002520 YchF GTPase; Region: YchF; cd01900 1208660002521 G1 box; other site 1208660002522 GTP/Mg2+ binding site [chemical binding]; other site 1208660002523 Switch I region; other site 1208660002524 G2 box; other site 1208660002525 Switch II region; other site 1208660002526 G3 box; other site 1208660002527 G4 box; other site 1208660002528 G5 box; other site 1208660002529 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 1208660002531 Helix-turn-helix domain; Region: HTH_20; pfam12840 1208660002532 dimerization interface [polypeptide binding]; other site 1208660002533 putative DNA binding site [nucleotide binding]; other site 1208660002534 putative Zn2+ binding site [ion binding]; other site 1208660002535 Uncharacterized conserved protein [Function unknown]; Region: COG4127 1208660002536 Restriction endonuclease; Region: Mrr_cat; pfam04471 1208660002537 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1208660002538 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1208660002539 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1208660002540 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1208660002541 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1208660002542 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 1208660002543 active site 1208660002544 NTP binding site [chemical binding]; other site 1208660002545 metal binding triad [ion binding]; metal-binding site 1208660002549 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660002550 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660002551 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660002552 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208660002553 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208660002554 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660002555 DNA-binding site [nucleotide binding]; DNA binding site 1208660002556 FCD domain; Region: FCD; pfam07729 1208660002557 thiamine pyrophosphate protein; Validated; Region: PRK08199 1208660002558 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208660002559 PYR/PP interface [polypeptide binding]; other site 1208660002560 dimer interface [polypeptide binding]; other site 1208660002561 TPP binding site [chemical binding]; other site 1208660002562 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208660002563 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 1208660002564 TPP-binding site [chemical binding]; other site 1208660002565 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660002566 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1208660002567 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 1208660002568 active site 1208660002569 iron coordination sites [ion binding]; other site 1208660002570 substrate binding pocket [chemical binding]; other site 1208660002571 malic enzyme; Reviewed; Region: PRK12861 1208660002572 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1208660002573 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1208660002574 putative NAD(P) binding site [chemical binding]; other site 1208660002575 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1208660002576 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1208660002577 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660002578 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 1208660002579 dimerization interface [polypeptide binding]; other site 1208660002580 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208660002581 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660002582 dimer interface [polypeptide binding]; other site 1208660002583 conserved gate region; other site 1208660002584 putative PBP binding loops; other site 1208660002585 ABC-ATPase subunit interface; other site 1208660002587 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 1208660002588 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660002589 Walker A/P-loop; other site 1208660002590 ATP binding site [chemical binding]; other site 1208660002591 Q-loop/lid; other site 1208660002592 ABC transporter signature motif; other site 1208660002593 Walker B; other site 1208660002594 D-loop; other site 1208660002595 H-loop/switch region; other site 1208660002596 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208660002597 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660002598 Walker A/P-loop; other site 1208660002599 ATP binding site [chemical binding]; other site 1208660002600 Q-loop/lid; other site 1208660002601 ABC transporter signature motif; other site 1208660002602 Walker B; other site 1208660002603 D-loop; other site 1208660002604 H-loop/switch region; other site 1208660002605 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1208660002606 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1208660002607 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 1208660002609 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660002610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660002611 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 1208660002612 dimerization interface [polypeptide binding]; other site 1208660002614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660002615 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660002616 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 1208660002617 putative hydrophobic ligand binding site [chemical binding]; other site 1208660002618 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 1208660002619 dimerization interface [polypeptide binding]; other site 1208660002620 putative DNA binding site [nucleotide binding]; other site 1208660002621 putative Zn2+ binding site [ion binding]; other site 1208660002622 AsmA family; Region: AsmA; pfam05170 1208660002623 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1208660002624 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1208660002625 Benzoate membrane transport protein; Region: BenE; pfam03594 1208660002626 benzoate transporter; Region: benE; TIGR00843 1208660002627 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1208660002628 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1208660002629 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1208660002630 active site 1208660002631 (T/H)XGH motif; other site 1208660002632 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1208660002633 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 1208660002634 S-adenosylmethionine binding site [chemical binding]; other site 1208660002635 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1208660002636 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1208660002637 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 1208660002638 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1208660002639 putative active site [active] 1208660002640 putative metal binding residues [ion binding]; other site 1208660002641 signature motif; other site 1208660002642 putative triphosphate binding site [ion binding]; other site 1208660002643 CHAD domain; Region: CHAD; pfam05235 1208660002644 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1208660002645 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660002646 dimer interface [polypeptide binding]; other site 1208660002647 conserved gate region; other site 1208660002648 ABC-ATPase subunit interface; other site 1208660002649 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1208660002650 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660002651 dimer interface [polypeptide binding]; other site 1208660002652 conserved gate region; other site 1208660002653 ABC-ATPase subunit interface; other site 1208660002655 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1208660002656 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 1208660002657 substrate binding pocket [chemical binding]; other site 1208660002658 membrane-bound complex binding site; other site 1208660002659 hinge residues; other site 1208660002660 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660002661 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660002662 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660002663 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 1208660002664 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1208660002665 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1208660002666 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1208660002667 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1208660002668 dimerization interface [polypeptide binding]; other site 1208660002669 active site 1208660002670 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 1208660002671 homopentamer interface [polypeptide binding]; other site 1208660002672 active site 1208660002673 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1208660002674 thiamine monophosphate kinase; Provisional; Region: PRK05731 1208660002675 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 1208660002676 ATP binding site [chemical binding]; other site 1208660002677 dimerization interface [polypeptide binding]; other site 1208660002678 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1208660002679 tetramer interfaces [polypeptide binding]; other site 1208660002680 binuclear metal-binding site [ion binding]; other site 1208660002681 Competence-damaged protein; Region: CinA; pfam02464 1208660002682 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 1208660002683 active site 1208660002684 dimer interface [polypeptide binding]; other site 1208660002685 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1208660002686 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208660002687 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1208660002688 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1208660002689 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 1208660002690 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208660002691 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208660002692 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660002693 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660002694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1208660002695 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1208660002696 Cell division protein ZapA; Region: ZapA; pfam05164 1208660002697 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1208660002698 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1208660002699 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1208660002700 Cytochrome c; Region: Cytochrom_C; cl11414 1208660002701 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1208660002702 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1208660002703 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1208660002704 dimer interface [polypeptide binding]; other site 1208660002705 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1208660002706 active site 1208660002707 Fe binding site [ion binding]; other site 1208660002708 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1208660002709 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 1208660002710 dimerization interface [polypeptide binding]; other site 1208660002711 putative DNA binding site [nucleotide binding]; other site 1208660002712 putative Zn2+ binding site [ion binding]; other site 1208660002713 AsnC family; Region: AsnC_trans_reg; pfam01037 1208660002714 Predicted membrane protein [Function unknown]; Region: COG3671 1208660002715 SWI complex, BAF60b domains; Region: SWIB; smart00151 1208660002716 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1208660002717 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1208660002718 metal binding site [ion binding]; metal-binding site 1208660002719 putative dimer interface [polypeptide binding]; other site 1208660002720 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 1208660002721 active site 1208660002722 substrate binding pocket [chemical binding]; other site 1208660002723 dimer interface [polypeptide binding]; other site 1208660002724 ABC transporter ATPase component; Reviewed; Region: PRK11147 1208660002725 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208660002726 ABC transporter; Region: ABC_tran_2; pfam12848 1208660002727 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208660002728 cell division protein MraZ; Reviewed; Region: PRK00326 1208660002729 MraZ protein; Region: MraZ; pfam02381 1208660002730 MraZ protein; Region: MraZ; pfam02381 1208660002731 MraW methylase family; Region: Methyltransf_5; cl17771 1208660002732 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1208660002733 cell division protein FtsL; Region: ftsL_broad; TIGR02209 1208660002734 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1208660002735 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1208660002736 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1208660002737 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional; Region: PRK11929 1208660002738 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1208660002739 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208660002740 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208660002741 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1208660002742 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208660002743 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208660002744 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1208660002745 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 1208660002746 Mg++ binding site [ion binding]; other site 1208660002747 putative catalytic motif [active] 1208660002748 putative substrate binding site [chemical binding]; other site 1208660002749 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 1208660002750 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208660002751 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208660002752 cell division protein FtsW; Region: ftsW; TIGR02614 1208660002753 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1208660002754 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 1208660002755 active site 1208660002756 homodimer interface [polypeptide binding]; other site 1208660002757 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1208660002758 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1208660002759 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208660002760 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208660002761 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1208660002762 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1208660002763 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208660002764 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1208660002765 Cell division protein FtsQ; Region: FtsQ; pfam03799 1208660002766 cell division protein FtsA; Region: ftsA; TIGR01174 1208660002767 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1208660002768 nucleotide binding site [chemical binding]; other site 1208660002769 Cell division protein FtsA; Region: FtsA; pfam14450 1208660002770 cell division protein FtsZ; Validated; Region: PRK09330 1208660002771 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 1208660002772 nucleotide binding site [chemical binding]; other site 1208660002773 SulA interaction site; other site 1208660002774 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1208660002775 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1208660002776 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 1208660002777 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1208660002778 Peptidase family M23; Region: Peptidase_M23; pfam01551 1208660002779 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1208660002780 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1208660002781 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 1208660002782 nucleotide binding region [chemical binding]; other site 1208660002783 ATP-binding site [chemical binding]; other site 1208660002784 SEC-C motif; Region: SEC-C; pfam02810 1208660002785 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1208660002786 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660002787 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1208660002788 short chain dehydrogenase; Provisional; Region: PRK08339 1208660002789 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1208660002790 putative NAD(P) binding site [chemical binding]; other site 1208660002791 putative active site [active] 1208660002792 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1208660002793 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1208660002794 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208660002795 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 1208660002796 putative DNA binding site [nucleotide binding]; other site 1208660002797 putative Zn2+ binding site [ion binding]; other site 1208660002798 AsnC family; Region: AsnC_trans_reg; pfam01037 1208660002799 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1208660002800 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 1208660002801 putative active site pocket [active] 1208660002802 dimerization interface [polypeptide binding]; other site 1208660002803 putative catalytic residue [active] 1208660002804 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 1208660002805 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1208660002806 MgtE intracellular N domain; Region: MgtE_N; smart00924 1208660002807 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 1208660002808 Divalent cation transporter; Region: MgtE; pfam01769 1208660002809 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 1208660002810 Predicted membrane protein [Function unknown]; Region: COG2855 1208660002811 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660002812 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660002813 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 1208660002814 putative dimerization interface [polypeptide binding]; other site 1208660002815 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1208660002816 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1208660002817 metal binding site [ion binding]; metal-binding site 1208660002818 putative dimer interface [polypeptide binding]; other site 1208660002819 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1208660002820 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208660002821 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1208660002822 acyl-activating enzyme (AAE) consensus motif; other site 1208660002823 putative AMP binding site [chemical binding]; other site 1208660002824 putative active site [active] 1208660002825 putative CoA binding site [chemical binding]; other site 1208660002826 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1208660002827 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 1208660002828 active site 1208660002829 dimerization interface [polypeptide binding]; other site 1208660002830 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1208660002831 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1208660002832 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1208660002833 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1208660002834 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 1208660002835 active site 1208660002836 catalytic site [active] 1208660002837 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1208660002838 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1208660002839 Walker A/P-loop; other site 1208660002840 ATP binding site [chemical binding]; other site 1208660002841 Q-loop/lid; other site 1208660002842 ABC transporter signature motif; other site 1208660002843 Walker B; other site 1208660002844 D-loop; other site 1208660002845 H-loop/switch region; other site 1208660002846 NIL domain; Region: NIL; pfam09383 1208660002847 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660002848 ABC-ATPase subunit interface; other site 1208660002849 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1208660002850 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1208660002851 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1208660002852 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1208660002853 active site 1208660002854 NAD binding site [chemical binding]; other site 1208660002855 metal binding site [ion binding]; metal-binding site 1208660002856 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1208660002857 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 1208660002858 substrate binding site [chemical binding]; other site 1208660002860 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1208660002861 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660002862 DNA-binding site [nucleotide binding]; DNA binding site 1208660002863 FCD domain; Region: FCD; pfam07729 1208660002864 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660002865 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1208660002866 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660002867 dimer interface [polypeptide binding]; other site 1208660002868 conserved gate region; other site 1208660002869 putative PBP binding loops; other site 1208660002870 ABC-ATPase subunit interface; other site 1208660002871 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1208660002872 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660002873 dimer interface [polypeptide binding]; other site 1208660002874 conserved gate region; other site 1208660002875 putative PBP binding loops; other site 1208660002876 ABC-ATPase subunit interface; other site 1208660002877 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1208660002878 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660002879 Walker A/P-loop; other site 1208660002880 ATP binding site [chemical binding]; other site 1208660002881 Q-loop/lid; other site 1208660002882 ABC transporter signature motif; other site 1208660002883 Walker B; other site 1208660002884 D-loop; other site 1208660002885 H-loop/switch region; other site 1208660002886 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1208660002887 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 1208660002888 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1208660002889 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1208660002890 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208660002891 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660002892 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1208660002893 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1208660002894 DNA binding residues [nucleotide binding] 1208660002895 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1208660002896 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1208660002897 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1208660002898 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660002899 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660002900 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1208660002901 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660002902 NAD(P) binding site [chemical binding]; other site 1208660002903 active site 1208660002905 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660002906 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660002907 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1208660002908 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1208660002909 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1208660002910 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1208660002911 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1208660002912 Secretin and TonB N terminus short domain; Region: STN; smart00965 1208660002913 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1208660002914 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 1208660002915 N-terminal plug; other site 1208660002916 ligand-binding site [chemical binding]; other site 1208660002917 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1208660002918 FecR protein; Region: FecR; pfam04773 1208660002919 RNA polymerase sigma factor; Reviewed; Region: PRK12527 1208660002920 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208660002921 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 1208660002922 DNA binding residues [nucleotide binding] 1208660002923 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1208660002924 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1208660002925 NAD(P) binding pocket [chemical binding]; other site 1208660002926 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1208660002927 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1208660002928 dimer interface [polypeptide binding]; other site 1208660002929 active site 1208660002930 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1208660002931 catalytic residues [active] 1208660002932 substrate binding site [chemical binding]; other site 1208660002933 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660002934 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208660002935 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660002936 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660002937 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 1208660002938 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1208660002939 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208660002940 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660002941 dimer interface [polypeptide binding]; other site 1208660002942 conserved gate region; other site 1208660002943 putative PBP binding loops; other site 1208660002944 ABC-ATPase subunit interface; other site 1208660002945 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1208660002946 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660002947 dimer interface [polypeptide binding]; other site 1208660002948 conserved gate region; other site 1208660002949 putative PBP binding loops; other site 1208660002950 ABC-ATPase subunit interface; other site 1208660002951 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1208660002952 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660002953 Walker A/P-loop; other site 1208660002954 ATP binding site [chemical binding]; other site 1208660002955 Q-loop/lid; other site 1208660002956 ABC transporter signature motif; other site 1208660002957 Walker B; other site 1208660002958 D-loop; other site 1208660002959 H-loop/switch region; other site 1208660002960 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208660002961 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660002962 Walker A/P-loop; other site 1208660002963 ATP binding site [chemical binding]; other site 1208660002964 Q-loop/lid; other site 1208660002965 ABC transporter signature motif; other site 1208660002966 Walker B; other site 1208660002967 D-loop; other site 1208660002968 H-loop/switch region; other site 1208660002969 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208660002970 amidase; Provisional; Region: PRK07487 1208660002971 Amidase; Region: Amidase; cl11426 1208660002972 aminotransferase; Validated; Region: PRK07678 1208660002973 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 1208660002974 inhibitor-cofactor binding pocket; inhibition site 1208660002975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660002976 catalytic residue [active] 1208660002977 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 1208660002978 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1208660002979 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 1208660002980 tetramer interface [polypeptide binding]; other site 1208660002981 active site 1208660002982 Mg2+/Mn2+ binding site [ion binding]; other site 1208660002983 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1208660002984 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1208660002985 ligand binding site [chemical binding]; other site 1208660002986 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 1208660002987 aromatic arch; other site 1208660002988 DCoH dimer interaction site [polypeptide binding]; other site 1208660002989 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1208660002990 DCoH tetramer interaction site [polypeptide binding]; other site 1208660002991 substrate binding site [chemical binding]; other site 1208660002992 hypothetical protein; Validated; Region: PRK09039 1208660002993 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 1208660002994 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1208660002995 Substrate binding site; other site 1208660002996 metal-binding site 1208660002997 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1208660002998 Phosphotransferase enzyme family; Region: APH; pfam01636 1208660002999 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1208660003000 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1208660003001 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1208660003002 SurA N-terminal domain; Region: SurA_N; pfam09312 1208660003003 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1208660003004 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1208660003005 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1208660003006 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 1208660003007 S-adenosylmethionine binding site [chemical binding]; other site 1208660003008 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1208660003009 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 1208660003010 pyruvate kinase; Provisional; Region: PRK05826 1208660003011 domain interfaces; other site 1208660003012 active site 1208660003013 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1208660003014 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1208660003015 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 1208660003016 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208660003017 active site 1208660003018 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1208660003019 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 1208660003020 active site 1208660003021 catalytic residues [active] 1208660003022 metal binding site [ion binding]; metal-binding site 1208660003023 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208660003024 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1208660003025 dimer interface [polypeptide binding]; other site 1208660003026 active site 1208660003027 metal binding site [ion binding]; metal-binding site 1208660003028 glutathione binding site [chemical binding]; other site 1208660003029 Protein of unknown function DUF45; Region: DUF45; pfam01863 1208660003030 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1208660003031 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1208660003032 putative acyl-acceptor binding pocket; other site 1208660003033 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1208660003034 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 1208660003035 active site 1208660003036 motif I; other site 1208660003037 motif II; other site 1208660003038 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1208660003039 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 1208660003040 dimer interface [polypeptide binding]; other site 1208660003041 motif 1; other site 1208660003042 active site 1208660003043 motif 2; other site 1208660003044 motif 3; other site 1208660003045 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208660003046 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 1208660003047 putative substrate translocation pore; other site 1208660003048 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 1208660003049 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1208660003050 tetramer interface [polypeptide binding]; other site 1208660003051 active site 1208660003052 Mg2+/Mn2+ binding site [ion binding]; other site 1208660003053 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 1208660003054 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 1208660003055 substrate binding site [chemical binding]; other site 1208660003056 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1208660003057 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1208660003058 substrate binding site [chemical binding]; other site 1208660003059 ligand binding site [chemical binding]; other site 1208660003060 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208660003061 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660003062 DNA-binding site [nucleotide binding]; DNA binding site 1208660003063 UTRA domain; Region: UTRA; pfam07702 1208660003064 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660003065 enoyl-CoA hydratase; Provisional; Region: PRK08252 1208660003066 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 1208660003067 substrate binding site [chemical binding]; other site 1208660003068 oxyanion hole (OAH) forming residues; other site 1208660003069 trimer interface [polypeptide binding]; other site 1208660003070 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1208660003071 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1208660003072 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1208660003073 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 1208660003074 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 1208660003075 active site 2 [active] 1208660003076 active site 1 [active] 1208660003078 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1208660003079 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 1208660003080 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1208660003081 substrate binding site [chemical binding]; other site 1208660003082 ATP binding site [chemical binding]; other site 1208660003083 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 1208660003084 catalytic center binding site [active] 1208660003085 ATP binding site [chemical binding]; other site 1208660003086 poly(A) polymerase; Region: pcnB; TIGR01942 1208660003087 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1208660003088 active site 1208660003089 NTP binding site [chemical binding]; other site 1208660003090 metal binding triad [ion binding]; metal-binding site 1208660003091 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1208660003092 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1208660003093 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1208660003094 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1208660003095 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 1208660003096 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1208660003097 Walker A motif; other site 1208660003098 ATP binding site [chemical binding]; other site 1208660003099 Walker B motif; other site 1208660003100 arginine finger; other site 1208660003101 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1208660003102 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 1208660003103 dimerization interface [polypeptide binding]; other site 1208660003104 putative ATP binding site [chemical binding]; other site 1208660003105 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1208660003106 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1208660003107 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 1208660003108 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 1208660003109 ATP binding site [chemical binding]; other site 1208660003110 Mg2+ binding site [ion binding]; other site 1208660003111 G-X-G motif; other site 1208660003112 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 1208660003113 ATP binding site [chemical binding]; other site 1208660003114 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1208660003115 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1208660003116 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1208660003117 AMIN domain; Region: AMIN; pfam11741 1208660003118 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 1208660003119 active site 1208660003120 metal binding site [ion binding]; metal-binding site 1208660003121 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1208660003122 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1208660003123 Class II fumarases; Region: Fumarase_classII; cd01362 1208660003124 active site 1208660003125 tetramer interface [polypeptide binding]; other site 1208660003126 Membrane transport protein; Region: Mem_trans; cl09117 1208660003127 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660003128 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1208660003129 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660003130 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 1208660003131 dimerization interface [polypeptide binding]; other site 1208660003132 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1208660003133 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1208660003134 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660003135 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660003136 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660003137 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208660003138 active site 1208660003139 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660003140 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 1208660003141 putative dimerization interface [polypeptide binding]; other site 1208660003142 putative substrate binding pocket [chemical binding]; other site 1208660003143 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1208660003144 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1208660003145 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1208660003146 putative active site [active] 1208660003147 putative substrate binding site [chemical binding]; other site 1208660003148 putative cosubstrate binding site; other site 1208660003149 catalytic site [active] 1208660003150 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1208660003151 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1208660003152 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1208660003153 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1208660003154 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1208660003155 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1208660003156 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1208660003157 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 1208660003158 putative active site pocket [active] 1208660003159 dimerization interface [polypeptide binding]; other site 1208660003160 putative catalytic residue [active] 1208660003161 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 1208660003162 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208660003163 putative substrate translocation pore; other site 1208660003164 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1208660003165 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 1208660003166 putative ATP binding site [chemical binding]; other site 1208660003167 putative substrate interface [chemical binding]; other site 1208660003168 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208660003169 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660003170 DNA-binding site [nucleotide binding]; DNA binding site 1208660003171 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1208660003172 acyl-CoA synthetase; Validated; Region: PRK06164 1208660003173 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208660003174 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208660003175 AMP binding site [chemical binding]; other site 1208660003176 active site 1208660003177 acyl-activating enzyme (AAE) consensus motif; other site 1208660003178 CoA binding site [chemical binding]; other site 1208660003179 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660003180 short chain dehydrogenase; Provisional; Region: PRK07577 1208660003181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660003182 NAD(P) binding site [chemical binding]; other site 1208660003183 active site 1208660003184 hypothetical protein; Provisional; Region: PRK07546 1208660003185 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1208660003186 substrate-cofactor binding pocket; other site 1208660003187 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1208660003188 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1208660003189 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1208660003190 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660003191 Walker A/P-loop; other site 1208660003192 ATP binding site [chemical binding]; other site 1208660003193 Q-loop/lid; other site 1208660003194 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660003195 ABC transporter signature motif; other site 1208660003196 Walker B; other site 1208660003197 D-loop; other site 1208660003198 H-loop/switch region; other site 1208660003199 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660003200 Walker A/P-loop; other site 1208660003201 ATP binding site [chemical binding]; other site 1208660003202 Q-loop/lid; other site 1208660003203 ABC transporter signature motif; other site 1208660003204 Walker B; other site 1208660003205 D-loop; other site 1208660003206 H-loop/switch region; other site 1208660003207 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1208660003208 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1208660003209 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660003210 Walker A/P-loop; other site 1208660003211 ATP binding site [chemical binding]; other site 1208660003212 Q-loop/lid; other site 1208660003213 ABC transporter signature motif; other site 1208660003214 Walker B; other site 1208660003215 D-loop; other site 1208660003216 H-loop/switch region; other site 1208660003217 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660003218 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660003219 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 1208660003220 putative effector binding pocket; other site 1208660003221 dimerization interface [polypeptide binding]; other site 1208660003222 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1208660003223 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 1208660003224 active site 1208660003225 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1208660003226 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 1208660003227 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208660003228 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660003229 dimer interface [polypeptide binding]; other site 1208660003230 conserved gate region; other site 1208660003231 putative PBP binding loops; other site 1208660003232 ABC-ATPase subunit interface; other site 1208660003233 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1208660003234 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660003235 dimer interface [polypeptide binding]; other site 1208660003236 conserved gate region; other site 1208660003237 putative PBP binding loops; other site 1208660003238 ABC-ATPase subunit interface; other site 1208660003239 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1208660003240 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660003241 Walker A/P-loop; other site 1208660003242 ATP binding site [chemical binding]; other site 1208660003243 Q-loop/lid; other site 1208660003244 ABC transporter signature motif; other site 1208660003245 Walker B; other site 1208660003246 D-loop; other site 1208660003247 H-loop/switch region; other site 1208660003248 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208660003249 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1208660003250 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660003251 Walker A/P-loop; other site 1208660003252 ATP binding site [chemical binding]; other site 1208660003253 Q-loop/lid; other site 1208660003254 ABC transporter signature motif; other site 1208660003255 Walker B; other site 1208660003256 D-loop; other site 1208660003257 H-loop/switch region; other site 1208660003258 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1208660003259 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 1208660003260 dimer interface [polypeptide binding]; other site 1208660003262 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208660003263 EamA-like transporter family; Region: EamA; pfam00892 1208660003264 EamA-like transporter family; Region: EamA; pfam00892 1208660003265 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1208660003266 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208660003267 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208660003268 ABC transporter; Region: ABC_tran_2; pfam12848 1208660003269 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208660003270 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 1208660003271 Isochorismatase family; Region: Isochorismatase; pfam00857 1208660003272 catalytic triad [active] 1208660003273 conserved cis-peptide bond; other site 1208660003274 cell division topological specificity factor MinE; Provisional; Region: PRK13989 1208660003275 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1208660003276 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 1208660003277 Switch I; other site 1208660003278 Switch II; other site 1208660003279 septum formation inhibitor; Provisional; Region: minC; PRK00030 1208660003280 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1208660003281 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1208660003282 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1208660003283 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1208660003284 active site 1208660003285 HIGH motif; other site 1208660003286 nucleotide binding site [chemical binding]; other site 1208660003287 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1208660003288 KMSKS motif; other site 1208660003289 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1208660003290 unknown EC_number=1.10.3. 1208660003291 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1208660003292 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1208660003293 sensor protein RstB; Provisional; Region: PRK10604 1208660003294 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 1208660003295 ATP binding site [chemical binding]; other site 1208660003296 Mg2+ binding site [ion binding]; other site 1208660003297 G-X-G motif; other site 1208660003298 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1208660003299 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 1208660003300 active site 1208660003301 phosphorylation site [posttranslational modification] 1208660003302 intermolecular recognition site; other site 1208660003303 dimerization interface [polypeptide binding]; other site 1208660003304 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 1208660003305 DNA binding site [nucleotide binding] 1208660003306 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1208660003307 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1208660003308 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 1208660003309 ATP binding site [chemical binding]; other site 1208660003310 putative Mg++ binding site [ion binding]; other site 1208660003311 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 1208660003312 nucleotide binding region [chemical binding]; other site 1208660003313 ATP-binding site [chemical binding]; other site 1208660003314 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1208660003315 HRDC domain; Region: HRDC; pfam00570 1208660003316 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1208660003317 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 1208660003318 Walker A motif; other site 1208660003319 ATP binding site [chemical binding]; other site 1208660003320 Walker B motif; other site 1208660003321 arginine finger; other site 1208660003322 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1208660003323 serine racemase; Region: PLN02970 1208660003324 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 1208660003325 tetramer interface [polypeptide binding]; other site 1208660003326 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660003327 catalytic residue [active] 1208660003328 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1208660003329 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1208660003330 putative NAD(P) binding site [chemical binding]; other site 1208660003331 active site 1208660003332 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1208660003333 RuvA N terminal domain; Region: RuvA_N; pfam01330 1208660003334 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1208660003335 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 1208660003336 active site 1208660003337 putative DNA-binding cleft [nucleotide binding]; other site 1208660003338 dimer interface [polypeptide binding]; other site 1208660003339 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1208660003340 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 1208660003341 purine monophosphate binding site [chemical binding]; other site 1208660003342 dimer interface [polypeptide binding]; other site 1208660003343 putative catalytic residues [active] 1208660003344 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1208660003345 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1208660003346 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1208660003347 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1208660003348 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 1208660003349 FMN binding site [chemical binding]; other site 1208660003350 active site 1208660003351 catalytic residues [active] 1208660003352 substrate binding site [chemical binding]; other site 1208660003353 hypothetical protein; Provisional; Region: PRK06996 1208660003354 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1208660003355 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1208660003356 proline aminopeptidase P II; Provisional; Region: PRK10879 1208660003357 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 1208660003358 active site 1208660003359 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 1208660003360 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1208660003361 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 1208660003362 trimer interface [polypeptide binding]; other site 1208660003363 eyelet of channel; other site 1208660003364 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 1208660003365 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1208660003366 active site 1208660003367 tetramer interface; other site 1208660003368 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1208660003369 Peptidase family M48; Region: Peptidase_M48; cl12018 1208660003370 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1208660003371 SnoaL-like domain; Region: SnoaL_3; pfam13474 1208660003372 SnoaL-like domain; Region: SnoaL_2; pfam12680 1208660003373 Zinc-finger domain; Region: zf-CHCC; cl01821 1208660003374 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1208660003375 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 1208660003376 homodimer interface [polypeptide binding]; other site 1208660003377 substrate-cofactor binding pocket; other site 1208660003378 catalytic residue [active] 1208660003379 AzlC protein; Region: AzlC; pfam03591 1208660003380 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1208660003381 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 1208660003382 putative Mg++ binding site [ion binding]; other site 1208660003383 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 1208660003384 nucleotide binding region [chemical binding]; other site 1208660003385 ATP-binding site [chemical binding]; other site 1208660003386 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 1208660003387 catalytic residues [active] 1208660003388 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 1208660003389 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 1208660003390 competence damage-inducible protein A; Provisional; Region: PRK01215 1208660003391 putative MPT binding site; other site 1208660003392 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208660003393 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660003394 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660003396 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660003397 Phasin protein; Region: Phasin_2; pfam09361 1208660003398 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1208660003399 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 1208660003400 quinone interaction residues [chemical binding]; other site 1208660003401 active site 1208660003402 catalytic residues [active] 1208660003403 FMN binding site [chemical binding]; other site 1208660003404 substrate binding site [chemical binding]; other site 1208660003405 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1208660003406 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1208660003407 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1208660003408 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1208660003409 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1208660003410 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 1208660003411 nudix motif; other site 1208660003412 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660003413 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660003414 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 1208660003415 putative effector binding pocket; other site 1208660003416 dimerization interface [polypeptide binding]; other site 1208660003417 DoxX; Region: DoxX; pfam07681 1208660003418 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 1208660003419 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1208660003420 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1208660003421 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1208660003422 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660003423 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1208660003424 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1208660003425 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1208660003426 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1208660003427 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208660003428 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1208660003429 DNA binding residues [nucleotide binding] 1208660003430 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1208660003431 dimer interface [polypeptide binding]; other site 1208660003432 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1208660003433 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 1208660003434 non-specific DNA binding site [nucleotide binding]; other site 1208660003435 salt bridge; other site 1208660003436 sequence-specific DNA binding site [nucleotide binding]; other site 1208660003437 Cupin domain; Region: Cupin_2; pfam07883 1208660003438 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1208660003439 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1208660003440 extended (e) SDRs; Region: SDR_e; cd08946 1208660003441 NAD(P) binding site [chemical binding]; other site 1208660003442 active site 1208660003443 substrate binding site [chemical binding]; other site 1208660003445 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208660003446 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660003447 DNA-binding site [nucleotide binding]; DNA binding site 1208660003448 FCD domain; Region: FCD; pfam07729 1208660003449 DctM-like transporters; Region: DctM; pfam06808 1208660003450 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208660003451 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208660003452 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208660003453 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1208660003455 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208660003456 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 1208660003457 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660003458 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660003459 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 1208660003460 putative dimerization interface [polypeptide binding]; other site 1208660003461 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660003462 enoyl-CoA hydratase; Provisional; Region: PRK06688 1208660003463 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 1208660003464 substrate binding site [chemical binding]; other site 1208660003465 oxyanion hole (OAH) forming residues; other site 1208660003466 trimer interface [polypeptide binding]; other site 1208660003467 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1208660003468 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 1208660003469 putative active site [active] 1208660003470 putative catalytic site [active] 1208660003471 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660003472 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660003473 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660003474 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 1208660003475 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1208660003476 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1208660003477 homodimer interface [polypeptide binding]; other site 1208660003478 NADP binding site [chemical binding]; other site 1208660003479 substrate binding site [chemical binding]; other site 1208660003480 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1208660003481 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660003482 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660003483 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 1208660003484 dimerization interface [polypeptide binding]; other site 1208660003486 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1208660003487 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1208660003488 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 1208660003489 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1208660003490 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1208660003491 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1208660003492 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1208660003493 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1208660003494 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1208660003495 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1208660003496 putative active site [active] 1208660003497 putative substrate binding site [chemical binding]; other site 1208660003498 putative cosubstrate binding site; other site 1208660003499 catalytic site [active] 1208660003500 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660003502 pyrimidine utilization protein D; Region: RutD; TIGR03611 1208660003503 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1208660003504 FAD binding domain; Region: FAD_binding_4; pfam01565 1208660003505 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1208660003506 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1208660003507 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1208660003508 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1208660003509 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1208660003510 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1208660003511 ferric uptake regulator; Provisional; Region: fur; PRK09462 1208660003512 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1208660003513 metal binding site 2 [ion binding]; metal-binding site 1208660003514 putative DNA binding helix; other site 1208660003515 metal binding site 1 [ion binding]; metal-binding site 1208660003516 dimer interface [polypeptide binding]; other site 1208660003517 structural Zn2+ binding site [ion binding]; other site 1208660003518 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660003519 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660003520 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1208660003521 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1208660003522 Walker A/P-loop; other site 1208660003523 ATP binding site [chemical binding]; other site 1208660003524 Q-loop/lid; other site 1208660003525 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1208660003526 ABC transporter signature motif; other site 1208660003527 Walker B; other site 1208660003528 D-loop; other site 1208660003529 H-loop/switch region; other site 1208660003530 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 1208660003531 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1208660003532 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1208660003533 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1208660003534 ferrochelatase; Reviewed; Region: hemH; PRK00035 1208660003535 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 1208660003536 C-terminal domain interface [polypeptide binding]; other site 1208660003537 active site 1208660003538 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 1208660003539 active site 1208660003540 N-terminal domain interface [polypeptide binding]; other site 1208660003541 GrpE; Region: GrpE; pfam01025 1208660003542 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 1208660003543 dimer interface [polypeptide binding]; other site 1208660003544 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1208660003545 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 1208660003546 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1208660003547 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1208660003548 nucleotide binding site [chemical binding]; other site 1208660003549 NEF interaction site [polypeptide binding]; other site 1208660003550 SBD interface [polypeptide binding]; other site 1208660003551 chaperone protein DnaJ; Provisional; Region: PRK10767 1208660003552 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 1208660003553 HSP70 interaction site [polypeptide binding]; other site 1208660003554 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1208660003555 Zn binding sites [ion binding]; other site 1208660003556 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1208660003557 dimer interface [polypeptide binding]; other site 1208660003558 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1208660003559 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1208660003560 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1208660003561 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1208660003562 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1208660003563 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1208660003564 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1208660003565 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1208660003566 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1208660003567 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 1208660003568 Walker A motif; other site 1208660003569 ATP binding site [chemical binding]; other site 1208660003570 Walker B motif; other site 1208660003571 arginine finger; other site 1208660003572 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1208660003573 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1208660003574 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1208660003575 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1208660003576 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 1208660003577 isocitrate dehydrogenase; Validated; Region: PRK07362 1208660003578 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1208660003579 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1208660003580 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 1208660003581 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1208660003582 O-Antigen ligase; Region: Wzy_C; pfam04932 1208660003583 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1208660003584 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 1208660003585 active site 1208660003586 phosphorylation site [posttranslational modification] 1208660003587 intermolecular recognition site; other site 1208660003588 dimerization interface [polypeptide binding]; other site 1208660003589 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 1208660003590 DNA binding site [nucleotide binding] 1208660003591 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1208660003592 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1208660003593 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 1208660003594 Ligand Binding Site [chemical binding]; other site 1208660003595 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1208660003596 GAF domain; Region: GAF_3; pfam13492 1208660003597 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 1208660003598 dimer interface [polypeptide binding]; other site 1208660003599 phosphorylation site [posttranslational modification] 1208660003600 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 1208660003601 ATP binding site [chemical binding]; other site 1208660003602 Mg2+ binding site [ion binding]; other site 1208660003603 G-X-G motif; other site 1208660003604 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1208660003606 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1208660003607 putative solute:sodium symporter small subunit; Region: Na_symport_sm; TIGR03647 1208660003608 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1208660003609 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 1208660003610 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1208660003611 Smr domain; Region: Smr; pfam01713 1208660003612 thioredoxin reductase; Provisional; Region: PRK10262 1208660003613 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1208660003614 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208660003615 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1208660003616 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1208660003617 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1208660003618 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1208660003619 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1208660003620 recombination factor protein RarA; Reviewed; Region: PRK13342 1208660003621 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 1208660003622 Walker A motif; other site 1208660003623 ATP binding site [chemical binding]; other site 1208660003624 Walker B motif; other site 1208660003625 arginine finger; other site 1208660003626 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1208660003627 seryl-tRNA synthetase; Provisional; Region: PRK05431 1208660003628 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1208660003629 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 1208660003630 dimer interface [polypeptide binding]; other site 1208660003631 active site 1208660003632 motif 1; other site 1208660003633 motif 2; other site 1208660003634 motif 3; other site 1208660003635 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660003636 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660003638 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 1208660003639 catalytic core [active] 1208660003640 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660003641 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660003642 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 1208660003643 dimerization interface [polypeptide binding]; other site 1208660003644 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1208660003645 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660003646 Walker A/P-loop; other site 1208660003647 ATP binding site [chemical binding]; other site 1208660003648 Q-loop/lid; other site 1208660003649 ABC transporter signature motif; other site 1208660003650 Walker B; other site 1208660003651 D-loop; other site 1208660003652 H-loop/switch region; other site 1208660003653 TOBE domain; Region: TOBE_2; pfam08402 1208660003655 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1208660003656 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1208660003658 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1208660003659 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1208660003660 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1208660003661 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 1208660003662 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1208660003663 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 1208660003664 S-adenosylmethionine binding site [chemical binding]; other site 1208660003665 FtsH Extracellular; Region: FtsH_ext; pfam06480 1208660003666 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1208660003667 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 1208660003668 Walker A motif; other site 1208660003669 ATP binding site [chemical binding]; other site 1208660003670 Walker B motif; other site 1208660003671 arginine finger; other site 1208660003672 Peptidase family M41; Region: Peptidase_M41; pfam01434 1208660003673 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 1208660003674 dihydropteroate synthase; Region: DHPS; TIGR01496 1208660003675 substrate binding pocket [chemical binding]; other site 1208660003676 dimer interface [polypeptide binding]; other site 1208660003677 inhibitor binding site; inhibition site 1208660003678 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1208660003679 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 1208660003680 active site 1208660003681 substrate binding site [chemical binding]; other site 1208660003682 metal binding site [ion binding]; metal-binding site 1208660003683 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1208660003684 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1208660003685 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1208660003686 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 1208660003687 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1208660003688 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1208660003689 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1208660003690 putative active site [active] 1208660003691 catalytic site [active] 1208660003692 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1208660003693 putative domain interface [polypeptide binding]; other site 1208660003694 putative active site [active] 1208660003695 catalytic site [active] 1208660003696 PBP superfamily domain; Region: PBP_like_2; cl17296 1208660003697 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 1208660003698 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660003699 dimer interface [polypeptide binding]; other site 1208660003700 conserved gate region; other site 1208660003701 putative PBP binding loops; other site 1208660003702 ABC-ATPase subunit interface; other site 1208660003703 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1208660003704 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660003705 dimer interface [polypeptide binding]; other site 1208660003706 conserved gate region; other site 1208660003707 putative PBP binding loops; other site 1208660003708 ABC-ATPase subunit interface; other site 1208660003709 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1208660003710 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1208660003711 Walker A/P-loop; other site 1208660003712 ATP binding site [chemical binding]; other site 1208660003713 Q-loop/lid; other site 1208660003714 ABC transporter signature motif; other site 1208660003715 Walker B; other site 1208660003716 D-loop; other site 1208660003717 H-loop/switch region; other site 1208660003718 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1208660003719 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1208660003720 YcfA-like protein; Region: YcfA; pfam07927 1208660003721 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1208660003722 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1208660003723 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1208660003725 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 1208660003726 active site clefts [active] 1208660003727 zinc binding site [ion binding]; other site 1208660003728 dimer interface [polypeptide binding]; other site 1208660003729 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660003730 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660003731 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 1208660003732 dimerization interface [polypeptide binding]; other site 1208660003733 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1208660003734 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1208660003735 putative active site [active] 1208660003736 metal binding site [ion binding]; metal-binding site 1208660003737 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1208660003738 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1208660003739 dimer interface [polypeptide binding]; other site 1208660003740 NADP binding site [chemical binding]; other site 1208660003741 catalytic residues [active] 1208660003742 Cupin domain; Region: Cupin_2; pfam07883 1208660003743 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1208660003744 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208660003745 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208660003746 Walker A/P-loop; other site 1208660003747 ATP binding site [chemical binding]; other site 1208660003748 Q-loop/lid; other site 1208660003749 ABC transporter signature motif; other site 1208660003750 Walker B; other site 1208660003751 D-loop; other site 1208660003752 H-loop/switch region; other site 1208660003753 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208660003754 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660003755 Walker A/P-loop; other site 1208660003756 ATP binding site [chemical binding]; other site 1208660003757 Q-loop/lid; other site 1208660003758 ABC transporter signature motif; other site 1208660003759 Walker B; other site 1208660003760 D-loop; other site 1208660003761 H-loop/switch region; other site 1208660003762 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660003763 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 1208660003764 TM-ABC transporter signature motif; other site 1208660003765 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208660003766 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 1208660003767 TM-ABC transporter signature motif; other site 1208660003768 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208660003769 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 1208660003770 putative ligand binding site [chemical binding]; other site 1208660003771 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208660003772 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660003773 Walker A/P-loop; other site 1208660003774 ATP binding site [chemical binding]; other site 1208660003775 Q-loop/lid; other site 1208660003776 ABC transporter signature motif; other site 1208660003777 Walker B; other site 1208660003778 D-loop; other site 1208660003779 H-loop/switch region; other site 1208660003780 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208660003781 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208660003782 Walker A/P-loop; other site 1208660003783 ATP binding site [chemical binding]; other site 1208660003784 Q-loop/lid; other site 1208660003785 ABC transporter signature motif; other site 1208660003786 Walker B; other site 1208660003787 D-loop; other site 1208660003788 H-loop/switch region; other site 1208660003789 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208660003790 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 1208660003791 TM-ABC transporter signature motif; other site 1208660003792 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660003793 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 1208660003794 TM-ABC transporter signature motif; other site 1208660003795 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208660003796 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 1208660003797 putative ligand binding site [chemical binding]; other site 1208660003798 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1208660003799 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660003800 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208660003801 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660003802 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208660003803 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660003804 NAD(P) binding site [chemical binding]; other site 1208660003805 active site 1208660003806 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660003807 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208660003809 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK06130 1208660003810 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1208660003811 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208660003812 enoyl-CoA hydratase; Provisional; Region: PRK06144 1208660003813 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 1208660003814 substrate binding site [chemical binding]; other site 1208660003815 oxyanion hole (OAH) forming residues; other site 1208660003816 trimer interface [polypeptide binding]; other site 1208660003817 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660003818 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660003820 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 1208660003821 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660003822 TM-ABC transporter signature motif; other site 1208660003823 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208660003824 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 1208660003825 TM-ABC transporter signature motif; other site 1208660003826 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208660003827 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208660003828 Walker A/P-loop; other site 1208660003829 ATP binding site [chemical binding]; other site 1208660003830 Q-loop/lid; other site 1208660003831 ABC transporter signature motif; other site 1208660003832 Walker B; other site 1208660003833 D-loop; other site 1208660003834 H-loop/switch region; other site 1208660003835 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208660003836 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660003837 Walker A/P-loop; other site 1208660003838 ATP binding site [chemical binding]; other site 1208660003839 Q-loop/lid; other site 1208660003840 ABC transporter signature motif; other site 1208660003841 Walker B; other site 1208660003842 D-loop; other site 1208660003843 H-loop/switch region; other site 1208660003844 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208660003845 Amidase; Region: Amidase; cl11426 1208660003847 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1208660003848 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660003849 DNA-binding site [nucleotide binding]; DNA binding site 1208660003850 FCD domain; Region: FCD; pfam07729 1208660003851 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 1208660003852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660003853 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208660003854 NAD(P) binding site [chemical binding]; other site 1208660003855 active site 1208660003856 short chain dehydrogenase; Provisional; Region: PRK12829 1208660003857 classical (c) SDRs; Region: SDR_c; cd05233 1208660003858 NAD(P) binding site [chemical binding]; other site 1208660003859 active site 1208660003860 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208660003861 DctM-like transporters; Region: DctM; pfam06808 1208660003862 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1208660003863 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208660003864 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1208660003865 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1208660003867 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208660003868 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660003869 DNA-binding site [nucleotide binding]; DNA binding site 1208660003870 FCD domain; Region: FCD; pfam07729 1208660003871 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208660003872 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 1208660003873 putative DNA binding site [nucleotide binding]; other site 1208660003874 putative Zn2+ binding site [ion binding]; other site 1208660003875 AsnC family; Region: AsnC_trans_reg; pfam01037 1208660003876 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; cd00640 1208660003877 catalytic residue [active] 1208660003879 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1208660003880 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 1208660003881 substrate binding pocket [chemical binding]; other site 1208660003882 membrane-bound complex binding site; other site 1208660003883 hinge residues; other site 1208660003884 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1208660003885 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660003886 conserved gate region; other site 1208660003887 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660003888 putative PBP binding loops; other site 1208660003889 dimer interface [polypeptide binding]; other site 1208660003890 ABC-ATPase subunit interface; other site 1208660003891 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660003892 dimer interface [polypeptide binding]; other site 1208660003893 conserved gate region; other site 1208660003894 putative PBP binding loops; other site 1208660003895 ABC-ATPase subunit interface; other site 1208660003898 aspartate aminotransferase; Provisional; Region: PRK06207 1208660003899 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 1208660003900 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660003901 homodimer interface [polypeptide binding]; other site 1208660003902 catalytic residue [active] 1208660003903 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1208660003904 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1208660003905 ligand binding site [chemical binding]; other site 1208660003906 NAD binding site [chemical binding]; other site 1208660003907 dimerization interface [polypeptide binding]; other site 1208660003908 catalytic site [active] 1208660003909 allantoate amidohydrolase; Reviewed; Region: PRK12891 1208660003910 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1208660003911 active site 1208660003912 metal binding site [ion binding]; metal-binding site 1208660003913 dimer interface [polypeptide binding]; other site 1208660003914 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1208660003915 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1208660003916 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1208660003917 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208660003918 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208660003919 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660003920 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660003921 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 1208660003922 dimerization interface [polypeptide binding]; other site 1208660003923 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 1208660003924 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1208660003925 active site 1208660003926 tetramer interface; other site 1208660003927 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1208660003928 short chain dehydrogenase; Provisional; Region: PRK07109 1208660003929 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 1208660003930 putative NAD(P) binding site [chemical binding]; other site 1208660003931 active site 1208660003932 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1208660003933 dimanganese center [ion binding]; other site 1208660003935 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660003936 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660003937 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 1208660003938 putative dimerization interface [polypeptide binding]; other site 1208660003939 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1208660003940 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 1208660003941 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 1208660003942 active site residue [active] 1208660003943 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 1208660003944 active site residue [active] 1208660003945 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 1208660003946 active site residue [active] 1208660003947 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1208660003948 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 1208660003949 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208660003950 catalytic residue [active] 1208660003951 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_5; cd06255 1208660003952 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1208660003953 putative active site [active] 1208660003954 Zn binding site [ion binding]; other site 1208660003955 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660003957 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 1208660003958 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1208660003959 putative active site [active] 1208660003960 catalytic triad [active] 1208660003961 putative dimer interface [polypeptide binding]; other site 1208660003962 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208660003963 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660003964 Walker A/P-loop; other site 1208660003965 ATP binding site [chemical binding]; other site 1208660003966 Q-loop/lid; other site 1208660003967 ABC transporter signature motif; other site 1208660003968 Walker B; other site 1208660003969 D-loop; other site 1208660003970 H-loop/switch region; other site 1208660003971 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208660003972 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208660003973 Walker A/P-loop; other site 1208660003974 ATP binding site [chemical binding]; other site 1208660003975 Q-loop/lid; other site 1208660003976 ABC transporter signature motif; other site 1208660003977 Walker B; other site 1208660003978 D-loop; other site 1208660003979 H-loop/switch region; other site 1208660003980 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660003981 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 1208660003982 TM-ABC transporter signature motif; other site 1208660003983 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 1208660003984 TM-ABC transporter signature motif; other site 1208660003985 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208660003986 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 1208660003987 ligand binding site [chemical binding]; other site 1208660003988 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 1208660003989 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1208660003990 putative active site [active] 1208660003991 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 1208660003992 putative deacylase active site [active] 1208660003993 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1208660003994 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1208660003995 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1208660003996 Walker A/P-loop; other site 1208660003997 ATP binding site [chemical binding]; other site 1208660003998 Q-loop/lid; other site 1208660003999 ABC transporter signature motif; other site 1208660004000 Walker B; other site 1208660004001 D-loop; other site 1208660004002 H-loop/switch region; other site 1208660004003 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 1208660004004 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1208660004005 Flagellar regulator YcgR; Region: YcgR; pfam07317 1208660004006 PilZ domain; Region: PilZ; pfam07238 1208660004007 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cl00248 1208660004008 dimerization interface [polypeptide binding]; other site 1208660004009 substrate binding site [chemical binding]; other site 1208660004010 active site 1208660004011 calcium binding site [ion binding]; other site 1208660004012 aldehyde dehydrogenase family 7 member; Region: PLN02315 1208660004013 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1208660004014 tetrameric interface [polypeptide binding]; other site 1208660004015 NAD binding site [chemical binding]; other site 1208660004016 catalytic residues [active] 1208660004017 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1208660004018 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1208660004019 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 1208660004020 carboxyltransferase (CT) interaction site; other site 1208660004021 biotinylation site [posttranslational modification]; other site 1208660004022 oxaloacetate decarboxylase; Provisional; Region: PRK12331 1208660004023 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1208660004024 active site 1208660004025 catalytic residues [active] 1208660004026 metal binding site [ion binding]; metal-binding site 1208660004027 homodimer binding site [polypeptide binding]; other site 1208660004028 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1208660004029 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 1208660004030 NAD(P) binding site [chemical binding]; other site 1208660004031 active site 1208660004032 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208660004033 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660004034 DNA-binding site [nucleotide binding]; DNA binding site 1208660004035 UTRA domain; Region: UTRA; pfam07702 1208660004036 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1208660004037 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1208660004038 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208660004039 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1208660004040 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1208660004041 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1208660004042 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1208660004043 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 1208660004044 carboxyltransferase (CT) interaction site; other site 1208660004045 biotinylation site [posttranslational modification]; other site 1208660004046 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1208660004047 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1208660004048 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1208660004049 CoA binding domain; Region: CoA_binding_2; pfam13380 1208660004050 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1208660004052 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208660004053 DctM-like transporters; Region: DctM; pfam06808 1208660004054 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208660004055 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 1208660004056 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1208660004057 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208660004058 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 1208660004059 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 1208660004060 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660004061 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660004062 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 1208660004063 putative effector binding pocket; other site 1208660004064 dimerization interface [polypeptide binding]; other site 1208660004065 EamA-like transporter family; Region: EamA; pfam00892 1208660004066 EamA-like transporter family; Region: EamA; pfam00892 1208660004067 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 1208660004068 [2Fe-2S] cluster binding site [ion binding]; other site 1208660004069 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 1208660004070 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1208660004071 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1208660004072 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1208660004073 Cupin domain; Region: Cupin_2; pfam07883 1208660004074 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 1208660004076 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208660004077 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 1208660004078 putative ligand binding site [chemical binding]; other site 1208660004079 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 1208660004080 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660004081 TM-ABC transporter signature motif; other site 1208660004082 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208660004083 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 1208660004084 TM-ABC transporter signature motif; other site 1208660004085 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208660004086 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208660004087 Walker A/P-loop; other site 1208660004088 ATP binding site [chemical binding]; other site 1208660004089 Q-loop/lid; other site 1208660004090 ABC transporter signature motif; other site 1208660004091 Walker B; other site 1208660004092 D-loop; other site 1208660004093 H-loop/switch region; other site 1208660004094 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208660004095 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660004096 Walker A/P-loop; other site 1208660004097 ATP binding site [chemical binding]; other site 1208660004098 Q-loop/lid; other site 1208660004099 ABC transporter signature motif; other site 1208660004100 Walker B; other site 1208660004101 D-loop; other site 1208660004102 H-loop/switch region; other site 1208660004103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660004104 NAD(P) binding site [chemical binding]; other site 1208660004105 active site 1208660004106 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1208660004107 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1208660004108 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660004109 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208660004110 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660004111 DNA-binding site [nucleotide binding]; DNA binding site 1208660004112 FCD domain; Region: FCD; pfam07729 1208660004114 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 1208660004115 homotrimer interaction site [polypeptide binding]; other site 1208660004116 putative active site [active] 1208660004117 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 1208660004118 homotrimer interaction site [polypeptide binding]; other site 1208660004119 putative active site [active] 1208660004120 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 1208660004121 homotrimer interaction site [polypeptide binding]; other site 1208660004122 putative active site [active] 1208660004123 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1208660004124 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 1208660004125 FMN binding site [chemical binding]; other site 1208660004126 active site 1208660004127 substrate binding site [chemical binding]; other site 1208660004128 catalytic residue [active] 1208660004129 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660004130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660004131 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 1208660004132 putative effector binding pocket; other site 1208660004133 dimerization interface [polypeptide binding]; other site 1208660004134 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 1208660004135 Type III secretion needle MxiH like; Region: MxiH; pfam09392 1208660004136 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 1208660004137 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 1208660004138 FHIPEP family; Region: FHIPEP; pfam00771 1208660004139 type III secretion chaperone SycN; Region: type_III_SycN; TIGR02503 1208660004140 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 1208660004141 type III secretion effector delivery regulator, TyeA family; Region: type_III_tyeA; TIGR02511 1208660004142 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 1208660004143 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 1208660004144 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 1208660004145 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 1208660004146 binding surface 1208660004147 TPR motif; other site 1208660004148 Type III secretion needle MxiH like; Region: MxiH; pfam09392 1208660004149 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1208660004150 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 1208660004151 Flagellar assembly protein FliH; Region: FliH; pfam02108 1208660004152 type III secretion system ATPase; Provisional; Region: PRK06936 1208660004153 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1208660004154 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 1208660004155 Walker A motif/ATP binding site; other site 1208660004156 Walker B motif; other site 1208660004157 Type III secretion protein YscO; Region: YscO; pfam07321 1208660004158 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 1208660004159 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1208660004160 type III secretion system protein YscR; Provisional; Region: PRK12797 1208660004161 type III secretion protein, HrpO family; Region: fliQ_rel_III; TIGR01403 1208660004162 type III secretion protein SpaR/YscT/HrcT; Region: fliR_like_III; TIGR01401 1208660004163 type III secretion protein, YscU/HrpY family; Region: FlhB_rel_III; TIGR01404 1208660004164 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1208660004165 Tir chaperone protein (CesT) family; Region: CesT; cl08444 1208660004166 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 1208660004167 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1208660004168 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1208660004169 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1208660004170 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1208660004171 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208660004172 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1208660004173 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1208660004174 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 1208660004175 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 1208660004176 dimerization interface [polypeptide binding]; other site 1208660004177 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1208660004178 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1208660004179 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 1208660004180 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208660004181 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1208660004182 alanine racemase; Reviewed; Region: alr; PRK00053 1208660004183 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1208660004184 catalytic residue [active] 1208660004185 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 1208660004186 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1208660004187 ATP binding site [chemical binding]; other site 1208660004188 Mg2+ binding site [ion binding]; other site 1208660004189 G-X-G motif; other site 1208660004190 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 1208660004191 anti sigma factor interaction site; other site 1208660004192 regulatory phosphorylation site [posttranslational modification]; other site 1208660004193 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1208660004194 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 1208660004195 putative active site [active] 1208660004196 catalytic site [active] 1208660004197 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 1208660004198 putative active site [active] 1208660004199 catalytic site [active] 1208660004200 Predicted metalloprotease [General function prediction only]; Region: COG2321 1208660004201 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1208660004202 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1208660004203 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 1208660004204 Peptidase family M50; Region: Peptidase_M50; pfam02163 1208660004205 active site 1208660004206 putative substrate binding region [chemical binding]; other site 1208660004207 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1208660004208 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1208660004209 dimer interface [polypeptide binding]; other site 1208660004210 active site 1208660004211 catalytic residue [active] 1208660004212 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1208660004213 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1208660004214 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1208660004215 Cupin superfamily protein; Region: Cupin_4; pfam08007 1208660004216 Cupin-like domain; Region: Cupin_8; pfam13621 1208660004217 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1208660004218 MutS domain I; Region: MutS_I; pfam01624 1208660004219 MutS domain II; Region: MutS_II; pfam05188 1208660004220 MutS domain III; Region: MutS_III; pfam05192 1208660004221 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660004222 Walker A/P-loop; other site 1208660004223 ATP binding site [chemical binding]; other site 1208660004224 Q-loop/lid; other site 1208660004225 ABC transporter signature motif; other site 1208660004226 Walker B; other site 1208660004227 D-loop; other site 1208660004228 H-loop/switch region; other site 1208660004229 Dodecin; Region: Dodecin; pfam07311 1208660004230 Predicted flavoprotein [General function prediction only]; Region: COG0431 1208660004231 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1208660004232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 1208660004233 Imelysin; Region: Peptidase_M75; cl09159 1208660004234 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1208660004235 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 1208660004236 Imelysin; Region: Peptidase_M75; cl09159 1208660004237 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 1208660004238 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 1208660004239 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1208660004240 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1208660004241 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660004242 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1208660004243 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660004244 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660004245 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1208660004246 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1208660004247 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1208660004248 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 1208660004249 active site 1208660004250 dimerization interface [polypeptide binding]; other site 1208660004251 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1208660004252 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1208660004253 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 1208660004254 Transporter associated domain; Region: CorC_HlyC; smart01091 1208660004255 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1208660004256 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1208660004257 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1208660004258 putative active site [active] 1208660004259 putative metal binding site [ion binding]; other site 1208660004260 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 1208660004261 substrate binding site [chemical binding]; other site 1208660004262 TPR repeat; Region: TPR_11; pfam13414 1208660004263 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 1208660004264 binding surface 1208660004265 TPR motif; other site 1208660004266 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1208660004267 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1208660004268 active site 1208660004269 HIGH motif; other site 1208660004270 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1208660004271 KMSKS motif; other site 1208660004272 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1208660004273 tRNA binding surface [nucleotide binding]; other site 1208660004274 anticodon binding site; other site 1208660004275 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1208660004276 endonuclease III; Region: ENDO3c; smart00478 1208660004277 minor groove reading motif; other site 1208660004278 helix-hairpin-helix signature motif; other site 1208660004279 substrate binding pocket [chemical binding]; other site 1208660004280 active site 1208660004281 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1208660004282 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1208660004283 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 1208660004284 TilS substrate binding domain; Region: TilS; pfam09179 1208660004285 aspartate kinase; Reviewed; Region: PRK06635 1208660004286 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 1208660004287 putative nucleotide binding site [chemical binding]; other site 1208660004288 putative catalytic residues [active] 1208660004289 putative Mg ion binding site [ion binding]; other site 1208660004290 putative aspartate binding site [chemical binding]; other site 1208660004291 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 1208660004292 putative allosteric regulatory site; other site 1208660004293 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 1208660004294 putative allosteric regulatory residue; other site 1208660004295 Cupin domain; Region: Cupin_2; pfam07883 1208660004296 NIPSNAP; Region: NIPSNAP; pfam07978 1208660004297 3-hydroxyacyl-CoA dehydrogenase; Validated; Region: PRK06129 1208660004298 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1208660004299 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208660004300 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1208660004301 DctM-like transporters; Region: DctM; pfam06808 1208660004302 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208660004303 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208660004304 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208660004306 putative L-aspartate dehydrogenase; Provisional; Region: PRK13301 1208660004307 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1208660004308 Domain of unknown function DUF108; Region: DUF108; pfam01958 1208660004309 short chain dehydrogenase; Provisional; Region: PRK06138 1208660004310 classical (c) SDRs; Region: SDR_c; cd05233 1208660004311 NAD(P) binding site [chemical binding]; other site 1208660004312 active site 1208660004313 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660004314 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660004315 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660004316 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1208660004317 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 1208660004318 dimerization interface [polypeptide binding]; other site 1208660004319 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1208660004320 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1208660004321 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1208660004322 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 1208660004323 active site 1208660004324 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 1208660004325 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660004326 dimer interface [polypeptide binding]; other site 1208660004327 conserved gate region; other site 1208660004328 putative PBP binding loops; other site 1208660004329 ABC-ATPase subunit interface; other site 1208660004331 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1208660004332 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660004333 Walker A/P-loop; other site 1208660004334 ATP binding site [chemical binding]; other site 1208660004335 Q-loop/lid; other site 1208660004336 ABC transporter signature motif; other site 1208660004337 Walker B; other site 1208660004338 D-loop; other site 1208660004339 H-loop/switch region; other site 1208660004340 TOBE domain; Region: TOBE_2; pfam08402 1208660004341 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1208660004342 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 1208660004343 active site 1208660004344 FMN binding site [chemical binding]; other site 1208660004345 substrate binding site [chemical binding]; other site 1208660004346 putative catalytic residue [active] 1208660004347 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660004348 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660004350 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660004351 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 1208660004352 homotrimer interaction site [polypeptide binding]; other site 1208660004353 putative active site [active] 1208660004354 (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 1208660004355 active site 1208660004356 catalytic site [active] 1208660004357 (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 1208660004358 active site 1208660004359 catalytic site [active] 1208660004360 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 1208660004361 active site 2 [active] 1208660004362 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 1208660004363 dimerization interface [polypeptide binding]; other site 1208660004364 putative DNA binding site [nucleotide binding]; other site 1208660004365 putative Zn2+ binding site [ion binding]; other site 1208660004366 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1208660004367 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 1208660004368 FMN binding site [chemical binding]; other site 1208660004369 active site 1208660004370 substrate binding site [chemical binding]; other site 1208660004371 catalytic residue [active] 1208660004372 N-glycosyltransferase; Provisional; Region: PRK11204 1208660004373 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1208660004374 DXD motif; other site 1208660004375 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 1208660004376 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 1208660004377 putative active site [active] 1208660004378 putative metal binding site [ion binding]; other site 1208660004379 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 1208660004380 TPR motif; other site 1208660004381 TPR repeat; Region: TPR_11; pfam13414 1208660004382 binding surface 1208660004383 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1208660004384 MarR family; Region: MarR_2; cl17246 1208660004385 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1208660004386 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208660004387 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 1208660004388 putative ligand binding site [chemical binding]; other site 1208660004389 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 1208660004390 TM-ABC transporter signature motif; other site 1208660004391 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208660004392 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 1208660004393 TM-ABC transporter signature motif; other site 1208660004394 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208660004395 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208660004396 Walker A/P-loop; other site 1208660004397 ATP binding site [chemical binding]; other site 1208660004398 Q-loop/lid; other site 1208660004399 ABC transporter signature motif; other site 1208660004400 Walker B; other site 1208660004401 D-loop; other site 1208660004402 H-loop/switch region; other site 1208660004403 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208660004404 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660004405 Walker A/P-loop; other site 1208660004406 ATP binding site [chemical binding]; other site 1208660004407 Q-loop/lid; other site 1208660004408 ABC transporter signature motif; other site 1208660004409 Walker B; other site 1208660004410 D-loop; other site 1208660004411 H-loop/switch region; other site 1208660004413 xanthine dehydrogenase E subunit; Region: pucE; TIGR03198 1208660004414 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 1208660004415 catalytic loop [active] 1208660004416 iron binding site [ion binding]; other site 1208660004417 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1208660004419 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1208660004420 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208660004421 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1208660004422 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 1208660004423 Isochorismatase family; Region: Isochorismatase; pfam00857 1208660004424 catalytic triad [active] 1208660004425 conserved cis-peptide bond; other site 1208660004426 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1208660004427 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1208660004428 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1208660004429 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1208660004430 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 1208660004431 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1208660004432 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 1208660004433 N-terminal plug; other site 1208660004434 ligand-binding site [chemical binding]; other site 1208660004435 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1208660004436 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1208660004437 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208660004438 Sulfatase; Region: Sulfatase; cl17466 1208660004439 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1208660004440 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1208660004441 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1208660004442 acyl-activating enzyme (AAE) consensus motif; other site 1208660004443 putative AMP binding site [chemical binding]; other site 1208660004444 putative active site [active] 1208660004445 putative CoA binding site [chemical binding]; other site 1208660004446 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 1208660004447 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 1208660004448 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 1208660004449 dimer interface [polypeptide binding]; other site 1208660004450 active site 1208660004451 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1208660004452 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1208660004453 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208660004454 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208660004455 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208660004456 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 1208660004457 substrate binding site [chemical binding]; other site 1208660004458 oxyanion hole (OAH) forming residues; other site 1208660004461 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 1208660004462 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 1208660004463 dimer interface [polypeptide binding]; other site 1208660004464 active site 1208660004465 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1208660004466 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208660004467 active site 1208660004468 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1208660004469 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660004470 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660004471 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1208660004472 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 1208660004473 DNA binding residues [nucleotide binding] 1208660004474 dimerization interface [polypeptide binding]; other site 1208660004475 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1208660004476 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 1208660004477 DNA binding residues [nucleotide binding] 1208660004478 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 1208660004479 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1208660004480 active site 1208660004481 substrate binding site [chemical binding]; other site 1208660004482 metal binding site [ion binding]; metal-binding site 1208660004484 serine O-acetyltransferase; Region: cysE; TIGR01172 1208660004485 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 1208660004486 trimer interface [polypeptide binding]; other site 1208660004487 active site 1208660004488 substrate binding site [chemical binding]; other site 1208660004489 CoA binding site [chemical binding]; other site 1208660004491 NAD-dependent deacetylase; Provisional; Region: PRK05333 1208660004492 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 1208660004493 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 1208660004494 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1208660004495 active site 1208660004496 putative lithium-binding site [ion binding]; other site 1208660004497 substrate binding site [chemical binding]; other site 1208660004498 succinic semialdehyde dehydrogenase; Region: PLN02278 1208660004499 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1208660004500 tetramerization interface [polypeptide binding]; other site 1208660004501 NAD(P) binding site [chemical binding]; other site 1208660004502 catalytic residues [active] 1208660004503 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 1208660004504 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 1208660004505 inhibitor-cofactor binding pocket; inhibition site 1208660004506 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660004507 catalytic residue [active] 1208660004508 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 1208660004509 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660004510 DNA-binding site [nucleotide binding]; DNA binding site 1208660004511 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 1208660004512 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660004513 homodimer interface [polypeptide binding]; other site 1208660004514 catalytic residue [active] 1208660004515 Protein of unknown function DUF72; Region: DUF72; pfam01904 1208660004516 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1208660004517 Part of AAA domain; Region: AAA_19; pfam13245 1208660004518 Family description; Region: UvrD_C_2; pfam13538 1208660004520 Staphylococcal nuclease homologues; Region: SNc; smart00318 1208660004521 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1208660004522 Catalytic site; other site 1208660004523 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 1208660004524 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1208660004525 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208660004526 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660004527 dimer interface [polypeptide binding]; other site 1208660004528 conserved gate region; other site 1208660004529 putative PBP binding loops; other site 1208660004530 ABC-ATPase subunit interface; other site 1208660004531 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1208660004532 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660004533 dimer interface [polypeptide binding]; other site 1208660004534 conserved gate region; other site 1208660004535 putative PBP binding loops; other site 1208660004536 ABC-ATPase subunit interface; other site 1208660004537 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1208660004538 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660004539 Walker A/P-loop; other site 1208660004540 ATP binding site [chemical binding]; other site 1208660004541 Q-loop/lid; other site 1208660004542 ABC transporter signature motif; other site 1208660004543 Walker B; other site 1208660004544 D-loop; other site 1208660004545 H-loop/switch region; other site 1208660004546 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208660004547 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660004548 Walker A/P-loop; other site 1208660004549 ATP binding site [chemical binding]; other site 1208660004550 Q-loop/lid; other site 1208660004551 ABC transporter signature motif; other site 1208660004552 Walker B; other site 1208660004553 D-loop; other site 1208660004554 H-loop/switch region; other site 1208660004555 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208660004556 MarR family; Region: MarR_2; pfam12802 1208660004558 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1208660004559 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1208660004560 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 1208660004561 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1208660004563 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1208660004564 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1208660004565 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1208660004566 AAA domain; Region: AAA_31; pfam13614 1208660004567 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1208660004568 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1208660004569 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 1208660004570 ATP binding site [chemical binding]; other site 1208660004571 Walker A motif; other site 1208660004572 hexamer interface [polypeptide binding]; other site 1208660004573 Walker B motif; other site 1208660004574 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1208660004575 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1208660004576 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1208660004577 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1208660004578 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 1208660004580 Predicted membrane protein [Function unknown]; Region: COG4655 1208660004581 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 1208660004582 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1208660004583 Walker A motif; other site 1208660004584 ATP binding site [chemical binding]; other site 1208660004585 Walker B motif; other site 1208660004586 arginine finger; other site 1208660004587 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1208660004588 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 1208660004589 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 1208660004590 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1208660004591 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208660004592 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 1208660004593 DNA binding residues [nucleotide binding] 1208660004594 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1208660004595 dinuclear metal binding motif [ion binding]; other site 1208660004596 Cytochrome c; Region: Cytochrom_C; cl11414 1208660004597 elongation factor P; Validated; Region: PRK00529 1208660004598 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1208660004599 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 1208660004600 RNA binding site [nucleotide binding]; other site 1208660004601 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 1208660004602 RNA binding site [nucleotide binding]; other site 1208660004603 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 1208660004604 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 1208660004605 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 1208660004606 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1208660004607 putative active site [active] 1208660004608 metal binding site [ion binding]; metal-binding site 1208660004609 aconitate hydratase; Provisional; Region: acnA; PRK12881 1208660004610 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1208660004611 substrate binding site [chemical binding]; other site 1208660004612 ligand binding site [chemical binding]; other site 1208660004613 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 1208660004614 substrate binding site [chemical binding]; other site 1208660004615 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 1208660004616 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1208660004617 catalytic residue [active] 1208660004618 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1208660004619 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 1208660004620 N-terminal plug; other site 1208660004621 ligand-binding site [chemical binding]; other site 1208660004623 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1208660004624 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1208660004625 ligand binding site [chemical binding]; other site 1208660004626 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 1208660004628 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1208660004629 active site 1208660004630 catalytic site [active] 1208660004631 substrate binding site [chemical binding]; other site 1208660004632 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 1208660004633 homodimer interface [polypeptide binding]; other site 1208660004634 chemical substrate binding site [chemical binding]; other site 1208660004635 oligomer interface [polypeptide binding]; other site 1208660004636 metal binding site [ion binding]; metal-binding site 1208660004637 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1208660004638 YciI-like protein; Reviewed; Region: PRK12866 1208660004639 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1208660004640 EamA-like transporter family; Region: EamA; pfam00892 1208660004642 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1208660004643 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 1208660004644 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1208660004645 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660004646 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660004647 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1208660004648 putative dimerization interface [polypeptide binding]; other site 1208660004649 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1208660004650 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1208660004651 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1208660004652 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1208660004653 Sodium Bile acid symporter family; Region: SBF; pfam01758 1208660004654 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208660004655 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660004656 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 1208660004657 dimerization interface [polypeptide binding]; other site 1208660004658 hypothetical protein; Provisional; Region: PRK01842 1208660004660 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1208660004661 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1208660004662 putative catalytic cysteine [active] 1208660004663 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1208660004664 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1208660004665 Lipopolysaccharide-assembly; Region: LptE; pfam04390 1208660004666 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1208660004667 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1208660004668 HIGH motif; other site 1208660004669 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1208660004670 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1208660004671 active site 1208660004672 KMSKS motif; other site 1208660004673 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1208660004674 tRNA binding surface [nucleotide binding]; other site 1208660004675 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1208660004676 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 1208660004677 putative substrate translocation pore; other site 1208660004679 bacterial (prokaryotic) histone like domain; Region: BHL; smart00411 1208660004680 IHF dimer interface [polypeptide binding]; other site 1208660004681 IHF - DNA interface [nucleotide binding]; other site 1208660004682 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1208660004683 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1208660004684 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1208660004685 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 1208660004686 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1208660004687 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1208660004688 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 1208660004689 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1208660004690 putative substrate translocation pore; other site 1208660004691 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 1208660004692 Methyltransferase domain; Region: Methyltransf_25; pfam13649 1208660004693 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1208660004694 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1208660004695 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660004696 dimer interface [polypeptide binding]; other site 1208660004697 conserved gate region; other site 1208660004698 putative PBP binding loops; other site 1208660004699 ABC-ATPase subunit interface; other site 1208660004700 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1208660004701 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1208660004702 Walker A/P-loop; other site 1208660004703 ATP binding site [chemical binding]; other site 1208660004704 Q-loop/lid; other site 1208660004705 ABC transporter signature motif; other site 1208660004706 Walker B; other site 1208660004707 D-loop; other site 1208660004708 H-loop/switch region; other site 1208660004709 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 1208660004710 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 1208660004711 active site 1 [active] 1208660004712 dimer interface [polypeptide binding]; other site 1208660004713 hexamer interface [polypeptide binding]; other site 1208660004714 active site 2 [active] 1208660004715 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 1208660004716 dimer interface [polypeptide binding]; other site 1208660004717 hexamer interface [polypeptide binding]; other site 1208660004718 active site 2 [active] 1208660004719 beta-ketothiolase; Provisional; Region: PRK09051 1208660004720 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 1208660004721 dimer interface [polypeptide binding]; other site 1208660004722 active site 1208660004723 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 1208660004724 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1208660004725 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660004726 DNA-binding site [nucleotide binding]; DNA binding site 1208660004727 FCD domain; Region: FCD; pfam07729 1208660004728 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 1208660004729 enoyl-CoA hydratase; Provisional; Region: PRK06127 1208660004730 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 1208660004731 substrate binding site [chemical binding]; other site 1208660004732 oxyanion hole (OAH) forming residues; other site 1208660004733 trimer interface [polypeptide binding]; other site 1208660004734 malonyl-CoA synthase; Validated; Region: PRK07514 1208660004735 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 1208660004736 acyl-activating enzyme (AAE) consensus motif; other site 1208660004737 active site 1208660004738 AMP binding site [chemical binding]; other site 1208660004739 CoA binding site [chemical binding]; other site 1208660004740 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660004741 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1208660004742 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 1208660004743 E-class dimer interface [polypeptide binding]; other site 1208660004744 P-class dimer interface [polypeptide binding]; other site 1208660004745 active site 1208660004746 Cu2+ binding site [ion binding]; other site 1208660004747 Zn2+ binding site [ion binding]; other site 1208660004748 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 1208660004749 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1208660004750 zinc binding site [ion binding]; other site 1208660004751 putative ligand binding site [chemical binding]; other site 1208660004752 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660004753 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 1208660004754 TM-ABC transporter signature motif; other site 1208660004755 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1208660004756 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660004757 Walker A/P-loop; other site 1208660004758 ATP binding site [chemical binding]; other site 1208660004759 Q-loop/lid; other site 1208660004760 ABC transporter signature motif; other site 1208660004761 Walker B; other site 1208660004762 D-loop; other site 1208660004763 H-loop/switch region; other site 1208660004764 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1208660004765 TOBE domain; Region: TOBE; cl01440 1208660004766 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1208660004767 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1208660004768 Patatin phospholipase; Region: DUF3734; pfam12536 1208660004769 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660004770 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660004771 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1208660004772 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1208660004773 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 1208660004774 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 1208660004775 Int/Topo IB signature motif; other site 1208660004776 HNH endonuclease; Region: HNH_3; pfam13392 1208660004777 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 1208660004778 DNA binding site [nucleotide binding] 1208660004779 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1208660004780 Plant organelle RNA recognition domain; Region: PORR; pfam11955 1208660004781 RecT family; Region: RecT; pfam03837 1208660004782 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1208660004783 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 1208660004784 non-specific DNA binding site [nucleotide binding]; other site 1208660004785 salt bridge; other site 1208660004786 sequence-specific DNA binding site [nucleotide binding]; other site 1208660004787 Predicted transcriptional regulator [Transcription]; Region: COG2932 1208660004788 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 1208660004789 Catalytic site [active] 1208660004790 Helix-turn-helix domain; Region: HTH_36; pfam13730 1208660004791 Loader and inhibitor of phage G40P; Region: Inhibitor_G39P; pfam11417 1208660004792 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; cl17280 1208660004793 active site 1208660004794 putative DNA-binding cleft [nucleotide binding]; other site 1208660004795 dimer interface [polypeptide binding]; other site 1208660004796 hypothetical protein; Region: PHA00675 1208660004797 Terminase-like family; Region: Terminase_6; pfam03237 1208660004798 acetyltransferase domain containing protein; Region: PHA00673 1208660004799 hypothetical protein; Region: PHA00672 1208660004800 hypothetical protein; Region: PHA00670 1208660004801 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 1208660004802 putative protease; Region: PHA00666 1208660004803 major capsid protein; Region: PHA00665 1208660004804 hypothetical protein; Region: PHA00664 1208660004805 hypothetical protein; Region: PHA00662 1208660004806 hypothetical protein; Region: PHA00661 1208660004807 hypothetical protein; Region: PHA00660 1208660004808 putative lysin; Region: PHA00658 1208660004809 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 1208660004810 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1208660004811 catalytic residue [active] 1208660004812 crystallin beta/gamma motif-containing protein; Region: PHA00657 1208660004813 major tropism determinant; Region: mtd; PHA00653 1208660004814 hypothetical protein; Region: PHA00652 1208660004815 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1208660004816 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1208660004817 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1208660004818 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 1208660004819 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1208660004820 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1208660004821 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 1208660004822 putative substrate translocation pore; other site 1208660004823 phosphoglycolate phosphatase; Provisional; Region: PRK13226 1208660004824 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 1208660004825 motif II; other site 1208660004826 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1208660004827 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1208660004828 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 1208660004829 S-adenosylmethionine binding site [chemical binding]; other site 1208660004830 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1208660004831 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1208660004832 ligand binding site [chemical binding]; other site 1208660004833 DNA gyrase subunit A; Validated; Region: PRK05560 1208660004834 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 1208660004835 CAP-like domain; other site 1208660004836 active site 1208660004837 primary dimer interface [polypeptide binding]; other site 1208660004838 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208660004839 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208660004840 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208660004841 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208660004842 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208660004843 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1208660004844 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 1208660004845 homodimer interface [polypeptide binding]; other site 1208660004846 substrate-cofactor binding pocket; other site 1208660004847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660004848 catalytic residue [active] 1208660004849 Chorismate mutase type II; Region: CM_2; cl00693 1208660004850 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1208660004851 Prephenate dehydratase; Region: PDT; pfam00800 1208660004852 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 1208660004853 putative L-Phe binding site [chemical binding]; other site 1208660004854 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 1208660004855 prephenate dehydrogenase; Validated; Region: PRK08507 1208660004856 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1208660004857 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 1208660004858 hinge; other site 1208660004859 active site 1208660004860 cytidylate kinase; Provisional; Region: cmk; PRK00023 1208660004861 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 1208660004862 CMP-binding site; other site 1208660004863 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1208660004864 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 1208660004865 RNA binding site [nucleotide binding]; other site 1208660004866 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 1208660004867 RNA binding site [nucleotide binding]; other site 1208660004868 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 1208660004869 RNA binding site [nucleotide binding]; other site 1208660004870 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 1208660004871 RNA binding site [nucleotide binding]; other site 1208660004872 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 1208660004873 RNA binding site [nucleotide binding]; other site 1208660004874 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 1208660004875 RNA binding site [nucleotide binding]; other site 1208660004876 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 1208660004877 IHF dimer interface [polypeptide binding]; other site 1208660004878 IHF - DNA interface [nucleotide binding]; other site 1208660004879 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1208660004880 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 1208660004881 binding surface 1208660004882 TPR motif; other site 1208660004883 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 1208660004884 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 1208660004885 putative ribose interaction site [chemical binding]; other site 1208660004886 putative ADP binding site [chemical binding]; other site 1208660004887 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1208660004888 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1208660004889 NADP binding site [chemical binding]; other site 1208660004890 homopentamer interface [polypeptide binding]; other site 1208660004891 substrate binding site [chemical binding]; other site 1208660004892 active site 1208660004893 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1208660004894 Helix-hairpin-helix motif; Region: HHH; pfam00633 1208660004895 cysteine synthase B; Region: cysM; TIGR01138 1208660004896 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 1208660004897 dimer interface [polypeptide binding]; other site 1208660004898 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660004899 catalytic residue [active] 1208660004900 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1208660004901 NIL domain; Region: NIL; cl09633 1208660004902 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 1208660004903 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1208660004904 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1208660004905 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1208660004906 putative active site [active] 1208660004907 Zn binding site [ion binding]; other site 1208660004908 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 1208660004909 Ligand binding site [chemical binding]; other site 1208660004910 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1208660004911 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1208660004912 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 1208660004913 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1208660004914 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1208660004915 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1208660004916 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208660004917 active site 1208660004918 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1208660004919 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1208660004920 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 1208660004921 dimer interface [polypeptide binding]; other site 1208660004922 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1208660004923 catalytic triad [active] 1208660004924 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1208660004925 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1208660004926 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1208660004927 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660004928 dimer interface [polypeptide binding]; other site 1208660004929 conserved gate region; other site 1208660004930 putative PBP binding loops; other site 1208660004931 ABC-ATPase subunit interface; other site 1208660004932 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1208660004933 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660004934 dimer interface [polypeptide binding]; other site 1208660004935 conserved gate region; other site 1208660004936 putative PBP binding loops; other site 1208660004937 ABC-ATPase subunit interface; other site 1208660004938 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1208660004939 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1208660004940 Walker A/P-loop; other site 1208660004941 ATP binding site [chemical binding]; other site 1208660004942 Q-loop/lid; other site 1208660004943 ABC transporter signature motif; other site 1208660004944 Walker B; other site 1208660004945 D-loop; other site 1208660004946 H-loop/switch region; other site 1208660004947 TOBE-like domain; Region: TOBE_3; pfam12857 1208660004948 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 1208660004949 Active Sites [active] 1208660004950 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1208660004951 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 1208660004952 Active Sites [active] 1208660004953 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 1208660004954 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1208660004955 CysD dimerization site [polypeptide binding]; other site 1208660004956 G1 box; other site 1208660004957 putative GEF interaction site [polypeptide binding]; other site 1208660004958 GTP/Mg2+ binding site [chemical binding]; other site 1208660004959 Switch I region; other site 1208660004960 G2 box; other site 1208660004961 G3 box; other site 1208660004962 Switch II region; other site 1208660004963 G4 box; other site 1208660004964 G5 box; other site 1208660004965 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 1208660004966 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 1208660004967 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1208660004969 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1208660004970 EamA-like transporter family; Region: EamA; cl17759 1208660004971 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1208660004972 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 1208660004973 putative active site [active] 1208660004974 putative CoA binding site [chemical binding]; other site 1208660004975 nudix motif; other site 1208660004976 metal binding site [ion binding]; metal-binding site 1208660004977 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 1208660004978 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1208660004979 active site 1208660004980 catalytic tetrad [active] 1208660004981 GTPase RsgA; Reviewed; Region: PRK00098 1208660004982 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 1208660004983 RNA binding site [nucleotide binding]; other site 1208660004984 homodimer interface [polypeptide binding]; other site 1208660004985 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1208660004986 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1208660004987 GTP/Mg2+ binding site [chemical binding]; other site 1208660004988 G4 box; other site 1208660004989 G5 box; other site 1208660004990 G1 box; other site 1208660004991 Switch I region; other site 1208660004992 G2 box; other site 1208660004993 G3 box; other site 1208660004994 Switch II region; other site 1208660004995 Peptidase family M48; Region: Peptidase_M48; pfam01435 1208660004996 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1208660004997 catalytic site [active] 1208660004998 putative active site [active] 1208660004999 putative substrate binding site [chemical binding]; other site 1208660005000 dimer interface [polypeptide binding]; other site 1208660005001 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 1208660005002 PaaX-like protein; Region: PaaX; pfam07848 1208660005003 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 1208660005004 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1208660005006 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1208660005007 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1208660005008 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1208660005009 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1208660005010 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1208660005011 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 1208660005012 FAD binding pocket [chemical binding]; other site 1208660005013 FAD binding motif [chemical binding]; other site 1208660005014 phosphate binding motif [ion binding]; other site 1208660005015 beta-alpha-beta structure motif; other site 1208660005016 NAD(p) ribose binding residues [chemical binding]; other site 1208660005017 NAD binding pocket [chemical binding]; other site 1208660005018 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1208660005019 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 1208660005020 catalytic loop [active] 1208660005021 iron binding site [ion binding]; other site 1208660005022 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 1208660005023 Phenylacetic acid degradation proteins PaaZ (Escherichia coli) and PaaN (Pseudomonas putida)-like; Region: ALDH_PAD-PaaZ; cd07127 1208660005024 NADP binding site [chemical binding]; other site 1208660005025 catalytic residues [active] 1208660005026 enoyl-CoA hydratase; Provisional; Region: PRK08140 1208660005027 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 1208660005028 substrate binding site [chemical binding]; other site 1208660005029 oxyanion hole (OAH) forming residues; other site 1208660005030 trimer interface [polypeptide binding]; other site 1208660005031 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 1208660005032 CoenzymeA binding site [chemical binding]; other site 1208660005033 subunit interaction site [polypeptide binding]; other site 1208660005034 PHB binding site; other site 1208660005035 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 1208660005036 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1208660005037 active site 1208660005038 AMP binding site [chemical binding]; other site 1208660005039 homodimer interface [polypeptide binding]; other site 1208660005040 acyl-activating enzyme (AAE) consensus motif; other site 1208660005041 CoA binding site [chemical binding]; other site 1208660005042 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1208660005043 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1208660005044 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1208660005046 DctM-like transporters; Region: DctM; pfam06808 1208660005047 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208660005048 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208660005049 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208660005050 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1208660005051 FtsX-like permease family; Region: FtsX; pfam02687 1208660005052 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 1208660005053 apolar tunnel; other site 1208660005054 heme binding site [chemical binding]; other site 1208660005055 dimerization interface [polypeptide binding]; other site 1208660005056 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1208660005057 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1208660005058 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1208660005059 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1208660005060 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1208660005061 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660005062 Walker A/P-loop; other site 1208660005063 ATP binding site [chemical binding]; other site 1208660005064 Q-loop/lid; other site 1208660005065 ABC transporter signature motif; other site 1208660005066 Walker B; other site 1208660005067 D-loop; other site 1208660005068 H-loop/switch region; other site 1208660005069 TOBE domain; Region: TOBE_2; pfam08402 1208660005070 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660005071 dimer interface [polypeptide binding]; other site 1208660005072 conserved gate region; other site 1208660005073 putative PBP binding loops; other site 1208660005074 ABC-ATPase subunit interface; other site 1208660005075 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1208660005076 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660005077 dimer interface [polypeptide binding]; other site 1208660005078 conserved gate region; other site 1208660005079 putative PBP binding loops; other site 1208660005080 ABC-ATPase subunit interface; other site 1208660005081 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 1208660005082 ArsC family; Region: ArsC; pfam03960 1208660005083 putative catalytic residues [active] 1208660005084 3-methyladenine DNA glycosylase; Reviewed; Region: PRK00802 1208660005085 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; pfam10707 1208660005086 RmuC family; Region: RmuC; pfam02646 1208660005087 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1208660005088 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208660005089 active site 1208660005090 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 1208660005091 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1208660005092 active site 1208660005093 dimer interface [polypeptide binding]; other site 1208660005094 transcriptional regulator PhoU; Provisional; Region: PRK11115 1208660005095 PhoU domain; Region: PhoU; pfam01895 1208660005096 PhoU domain; Region: PhoU; pfam01895 1208660005098 oxidative damage protection protein; Provisional; Region: PRK05408 1208660005099 N-acetylglutamate synthase; Validated; Region: PRK05279 1208660005100 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 1208660005101 putative feedback inhibition sensing region; other site 1208660005102 putative nucleotide binding site [chemical binding]; other site 1208660005103 putative substrate binding site [chemical binding]; other site 1208660005104 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208660005105 Coenzyme A binding pocket [chemical binding]; other site 1208660005106 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1208660005107 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 1208660005108 ATP binding site [chemical binding]; other site 1208660005109 putative Mg++ binding site [ion binding]; other site 1208660005110 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 1208660005111 nucleotide binding region [chemical binding]; other site 1208660005112 ATP-binding site [chemical binding]; other site 1208660005113 Helicase associated domain (HA2); Region: HA2; pfam04408 1208660005114 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1208660005115 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1208660005116 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1208660005117 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1208660005118 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1208660005119 putative active site [active] 1208660005120 putative PHP Thumb interface [polypeptide binding]; other site 1208660005121 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 1208660005122 generic binding surface I; other site 1208660005123 generic binding surface II; other site 1208660005124 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 1208660005125 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208660005126 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 1208660005127 putative active site [active] 1208660005128 putative metal binding site [ion binding]; other site 1208660005129 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1208660005130 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1208660005131 putative metal binding site; other site 1208660005132 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208660005133 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 1208660005134 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1208660005135 Sulfatase; Region: Sulfatase; cl17466 1208660005136 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1208660005137 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 1208660005138 putative active site [active] 1208660005139 putative metal binding site [ion binding]; other site 1208660005140 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208660005141 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 1208660005142 Flagellin N-methylase; Region: FliB; pfam03692 1208660005143 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1208660005144 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 1208660005145 putative active site [active] 1208660005146 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 1208660005147 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 1208660005148 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 1208660005149 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1208660005150 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1208660005151 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660005152 Walker A/P-loop; other site 1208660005153 ATP binding site [chemical binding]; other site 1208660005154 Q-loop/lid; other site 1208660005155 ABC transporter signature motif; other site 1208660005156 Walker B; other site 1208660005157 D-loop; other site 1208660005158 H-loop/switch region; other site 1208660005159 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 1208660005160 putative substrate translocation pore; other site 1208660005161 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660005162 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660005163 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1208660005164 Prephenate dehydratase; Region: PDT; pfam00800 1208660005165 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1208660005166 ribonuclease G; Provisional; Region: PRK11712 1208660005167 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 1208660005168 homodimer interface [polypeptide binding]; other site 1208660005169 oligonucleotide binding site [chemical binding]; other site 1208660005171 Maf-like protein; Region: Maf; pfam02545 1208660005172 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 1208660005173 active site 1208660005174 dimer interface [polypeptide binding]; other site 1208660005175 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1208660005176 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1208660005177 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1208660005178 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1208660005179 active site 1208660005180 (T/H)XGH motif; other site 1208660005181 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1208660005182 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1208660005183 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1208660005184 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1208660005185 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1208660005186 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1208660005187 hypothetical protein; Validated; Region: PRK00110 1208660005189 aminotransferase; Provisional; Region: PRK06105 1208660005190 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 1208660005191 inhibitor-cofactor binding pocket; inhibition site 1208660005192 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660005193 catalytic residue [active] 1208660005195 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208660005196 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1208660005197 NAD(P) binding site [chemical binding]; other site 1208660005198 catalytic residues [active] 1208660005199 EamA-like transporter family; Region: EamA; pfam00892 1208660005200 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208660005201 EamA-like transporter family; Region: EamA; pfam00892 1208660005202 allantoate amidohydrolase; Reviewed; Region: PRK12893 1208660005203 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1208660005204 active site 1208660005205 metal binding site [ion binding]; metal-binding site 1208660005206 dimer interface [polypeptide binding]; other site 1208660005207 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1208660005208 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1208660005209 active site 1208660005210 Zn binding site [ion binding]; other site 1208660005211 Cupin domain; Region: Cupin_2; cl17218 1208660005212 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 1208660005213 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 1208660005214 inhibitor-cofactor binding pocket; inhibition site 1208660005215 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660005216 catalytic residue [active] 1208660005217 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1208660005218 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660005219 Walker A/P-loop; other site 1208660005220 ATP binding site [chemical binding]; other site 1208660005221 Q-loop/lid; other site 1208660005222 ABC transporter signature motif; other site 1208660005223 Walker B; other site 1208660005224 D-loop; other site 1208660005225 H-loop/switch region; other site 1208660005226 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1208660005227 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660005228 Walker A/P-loop; other site 1208660005229 ATP binding site [chemical binding]; other site 1208660005230 Q-loop/lid; other site 1208660005231 ABC transporter signature motif; other site 1208660005232 Walker B; other site 1208660005233 D-loop; other site 1208660005234 H-loop/switch region; other site 1208660005235 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208660005236 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1208660005237 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660005238 putative PBP binding loops; other site 1208660005239 dimer interface [polypeptide binding]; other site 1208660005240 ABC-ATPase subunit interface; other site 1208660005241 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208660005242 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660005243 dimer interface [polypeptide binding]; other site 1208660005244 conserved gate region; other site 1208660005245 putative PBP binding loops; other site 1208660005246 ABC-ATPase subunit interface; other site 1208660005247 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1208660005248 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 1208660005249 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 1208660005250 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660005251 DNA-binding site [nucleotide binding]; DNA binding site 1208660005252 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 1208660005253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660005254 homodimer interface [polypeptide binding]; other site 1208660005255 catalytic residue [active] 1208660005256 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1208660005257 tartrate dehydrogenase; Region: TTC; TIGR02089 1208660005258 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1208660005259 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 1208660005260 putative substrate translocation pore; other site 1208660005261 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 1208660005262 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1208660005263 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1208660005264 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208660005266 MarR family; Region: MarR_2; cl17246 1208660005267 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1208660005268 EamA-like transporter family; Region: EamA; pfam00892 1208660005270 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660005271 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660005272 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1208660005273 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1208660005274 NADP binding site [chemical binding]; other site 1208660005275 dimer interface [polypeptide binding]; other site 1208660005276 heat shock protein HtpX; Provisional; Region: PRK05457 1208660005277 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208660005278 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 1208660005279 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1208660005280 active site residue [active] 1208660005281 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 1208660005282 active site residue [active] 1208660005283 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 1208660005284 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1208660005285 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660005286 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 1208660005287 dimerization interface [polypeptide binding]; other site 1208660005288 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 1208660005289 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660005290 Walker A/P-loop; other site 1208660005291 ATP binding site [chemical binding]; other site 1208660005292 Q-loop/lid; other site 1208660005293 ABC transporter signature motif; other site 1208660005294 Walker B; other site 1208660005295 D-loop; other site 1208660005296 H-loop/switch region; other site 1208660005297 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 1208660005298 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660005299 putative PBP binding loops; other site 1208660005300 dimer interface [polypeptide binding]; other site 1208660005301 ABC-ATPase subunit interface; other site 1208660005302 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660005303 dimer interface [polypeptide binding]; other site 1208660005304 conserved gate region; other site 1208660005305 putative PBP binding loops; other site 1208660005306 ABC-ATPase subunit interface; other site 1208660005309 RNA polymerase sigma factor; Provisional; Region: PRK12529 1208660005310 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208660005311 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1208660005312 DNA binding residues [nucleotide binding] 1208660005313 Secretin and TonB N terminus short domain; Region: STN; smart00965 1208660005314 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1208660005315 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1208660005316 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 1208660005317 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1208660005318 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 1208660005319 [2Fe-2S] cluster binding site [ion binding]; other site 1208660005320 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1208660005321 alpha subunit interface [polypeptide binding]; other site 1208660005322 active site 1208660005323 substrate binding site [chemical binding]; other site 1208660005324 Fe binding site [ion binding]; other site 1208660005325 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1208660005326 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1208660005327 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660005328 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660005329 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660005330 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660005331 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1208660005332 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1208660005333 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1208660005334 substrate binding pocket [chemical binding]; other site 1208660005335 chain length determination region; other site 1208660005336 substrate-Mg2+ binding site; other site 1208660005337 catalytic residues [active] 1208660005338 aspartate-rich region 1; other site 1208660005339 active site lid residues [active] 1208660005340 aspartate-rich region 2; other site 1208660005341 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1208660005342 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 1208660005343 TPP-binding site; other site 1208660005344 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 1208660005345 PYR/PP interface [polypeptide binding]; other site 1208660005346 dimer interface [polypeptide binding]; other site 1208660005347 TPP binding site [chemical binding]; other site 1208660005348 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1208660005349 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1208660005350 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1208660005351 primosomal replication protein N; Reviewed; Region: PRK00036 1208660005352 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1208660005353 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1208660005354 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1208660005355 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1208660005356 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660005357 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660005358 serine/threonine protein kinase; Provisional; Region: PRK14879 1208660005359 replicative DNA helicase; Provisional; Region: PRK07004 1208660005360 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1208660005361 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 1208660005362 Walker A motif; other site 1208660005363 ATP binding site [chemical binding]; other site 1208660005364 Walker B motif; other site 1208660005365 DNA binding loops [nucleotide binding] 1208660005366 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1208660005367 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1208660005368 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1208660005369 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 1208660005370 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1208660005371 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1208660005372 putative active site [active] 1208660005373 PhoH-like protein; Region: PhoH; pfam02562 1208660005374 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1208660005375 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 1208660005376 catalytic triad [active] 1208660005377 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 1208660005378 aminotransferase; Validated; Region: PRK08175 1208660005379 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 1208660005380 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660005381 homodimer interface [polypeptide binding]; other site 1208660005382 catalytic residue [active] 1208660005383 homoserine dehydrogenase; Provisional; Region: PRK06349 1208660005384 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1208660005385 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1208660005386 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 1208660005387 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1208660005388 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 1208660005389 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660005390 catalytic residue [active] 1208660005391 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1208660005393 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1208660005394 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 1208660005395 AMP binding site [chemical binding]; other site 1208660005396 metal binding site [ion binding]; metal-binding site 1208660005397 active site 1208660005398 aminopeptidase N; Provisional; Region: pepN; PRK14015 1208660005399 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1208660005400 active site 1208660005401 Zn binding site [ion binding]; other site 1208660005402 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1208660005403 H-NS histone family; Region: Histone_HNS; pfam00816 1208660005404 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1208660005405 nitrilase; Region: PLN02798 1208660005406 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1208660005407 putative active site [active] 1208660005408 catalytic triad [active] 1208660005409 dimer interface [polypeptide binding]; other site 1208660005410 protease TldD; Provisional; Region: tldD; PRK10735 1208660005411 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1208660005412 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1208660005413 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1208660005414 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1208660005415 Peptidase C80 family; Region: Peptidase_C80; pfam11713 1208660005416 Peptidase C80 family; Region: Peptidase_C80; pfam11713 1208660005417 Peptidase C80 family; Region: Peptidase_C80; pfam11713 1208660005418 Peptidase C80 family; Region: Peptidase_C80; pfam11713 1208660005419 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1208660005420 FAD binding domain; Region: FAD_binding_4; pfam01565 1208660005421 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1208660005422 FAD binding domain; Region: FAD_binding_4; pfam01565 1208660005423 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1208660005424 FAD binding domain; Region: FAD_binding_4; pfam01565 1208660005425 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1208660005426 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 1208660005427 Cysteine-rich domain; Region: CCG; pfam02754 1208660005428 Cysteine-rich domain; Region: CCG; pfam02754 1208660005431 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208660005432 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1208660005433 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1208660005434 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1208660005435 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1208660005436 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1208660005437 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1208660005438 ligand binding site [chemical binding]; other site 1208660005439 homodimer interface [polypeptide binding]; other site 1208660005440 NAD(P) binding site [chemical binding]; other site 1208660005441 trimer interface B [polypeptide binding]; other site 1208660005442 trimer interface A [polypeptide binding]; other site 1208660005443 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 1208660005444 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660005445 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208660005446 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660005447 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 1208660005448 dimerization interface [polypeptide binding]; other site 1208660005449 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1208660005450 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 1208660005451 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1208660005452 putative glutathione S-transferase; Provisional; Region: PRK10357 1208660005453 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 1208660005454 putative C-terminal domain interface [polypeptide binding]; other site 1208660005455 putative GSH binding site (G-site) [chemical binding]; other site 1208660005456 putative dimer interface [polypeptide binding]; other site 1208660005457 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1208660005458 dimer interface [polypeptide binding]; other site 1208660005459 N-terminal domain interface [polypeptide binding]; other site 1208660005460 putative substrate binding pocket (H-site) [chemical binding]; other site 1208660005461 adenylosuccinate lyase; Provisional; Region: PRK09285 1208660005462 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1208660005463 tetramer interface [polypeptide binding]; other site 1208660005464 active site 1208660005465 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1208660005466 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660005467 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660005468 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 1208660005469 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 1208660005470 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1208660005471 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1208660005472 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 1208660005473 Isochorismatase family; Region: Isochorismatase; pfam00857 1208660005474 catalytic triad [active] 1208660005475 metal binding site [ion binding]; metal-binding site 1208660005476 conserved cis-peptide bond; other site 1208660005477 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 1208660005478 heme-binding site [chemical binding]; other site 1208660005479 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208660005480 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208660005481 metal binding site [ion binding]; metal-binding site 1208660005482 active site 1208660005483 I-site; other site 1208660005484 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1208660005485 Zn2+ binding site [ion binding]; other site 1208660005486 Mg2+ binding site [ion binding]; other site 1208660005488 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 1208660005489 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 1208660005490 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1208660005491 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1208660005492 putative active site [active] 1208660005493 catalytic site [active] 1208660005494 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1208660005495 putative active site [active] 1208660005496 catalytic site [active] 1208660005497 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1208660005498 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 1208660005499 active site 1208660005500 FMN binding site [chemical binding]; other site 1208660005501 substrate binding site [chemical binding]; other site 1208660005502 3Fe-4S cluster binding site [ion binding]; other site 1208660005503 Sulphur transport; Region: Sulf_transp; pfam04143 1208660005504 Predicted permeases [General function prediction only]; Region: COG0679 1208660005505 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1208660005506 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208660005507 Coenzyme A binding pocket [chemical binding]; other site 1208660005508 DTW domain; Region: DTW; cl01221 1208660005509 ribonuclease R; Region: RNase_R; TIGR02063 1208660005510 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1208660005511 RNA binding site [nucleotide binding]; other site 1208660005512 RNB domain; Region: RNB; pfam00773 1208660005513 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 1208660005514 RNA binding site [nucleotide binding]; other site 1208660005515 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1208660005516 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1208660005517 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1208660005518 hypothetical protein; Provisional; Region: PRK05939 1208660005519 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 1208660005520 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208660005521 catalytic residue [active] 1208660005522 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1208660005523 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 1208660005524 IHF dimer interface [polypeptide binding]; other site 1208660005525 IHF - DNA interface [nucleotide binding]; other site 1208660005526 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1208660005527 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1208660005528 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1208660005529 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1208660005530 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208660005531 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 1208660005532 active site 1208660005533 phosphorylation site [posttranslational modification] 1208660005534 intermolecular recognition site; other site 1208660005535 dimerization interface [polypeptide binding]; other site 1208660005536 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 1208660005537 DNA binding site [nucleotide binding] 1208660005538 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 1208660005539 dimer interface [polypeptide binding]; other site 1208660005540 phosphorylation site [posttranslational modification] 1208660005541 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 1208660005542 ATP binding site [chemical binding]; other site 1208660005543 Mg2+ binding site [ion binding]; other site 1208660005544 G-X-G motif; other site 1208660005545 K+ potassium transporter; Region: K_trans; cl15781 1208660005546 potassium uptake protein; Region: kup; TIGR00794 1208660005547 argininosuccinate synthase; Validated; Region: PRK05370 1208660005548 argininosuccinate synthase; Provisional; Region: PRK13820 1208660005549 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1208660005550 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1208660005551 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1208660005552 acetylornithine aminotransferase; Provisional; Region: PRK02627 1208660005553 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 1208660005554 inhibitor-cofactor binding pocket; inhibition site 1208660005555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660005556 catalytic residue [active] 1208660005557 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 1208660005559 short chain dehydrogenase; Provisional; Region: PRK12744 1208660005560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660005561 NAD(P) binding site [chemical binding]; other site 1208660005562 active site 1208660005563 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1208660005564 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1208660005565 putative ligand binding site [chemical binding]; other site 1208660005566 NAD binding site [chemical binding]; other site 1208660005567 catalytic site [active] 1208660005568 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660005569 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1208660005570 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1208660005571 inhibitor site; inhibition site 1208660005572 active site 1208660005573 dimer interface [polypeptide binding]; other site 1208660005574 catalytic residue [active] 1208660005575 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1208660005576 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660005577 DNA-binding site [nucleotide binding]; DNA binding site 1208660005578 FCD domain; Region: FCD; pfam07729 1208660005579 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1208660005580 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1208660005581 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660005582 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 1208660005583 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1208660005585 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1208660005586 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1208660005587 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1208660005588 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1208660005589 NAD binding site [chemical binding]; other site 1208660005590 homodimer interface [polypeptide binding]; other site 1208660005591 homotetramer interface [polypeptide binding]; other site 1208660005592 active site 1208660005593 adenylate kinase; Reviewed; Region: adk; PRK00279 1208660005594 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 1208660005595 AMP-binding site [chemical binding]; other site 1208660005596 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1208660005597 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1208660005598 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1208660005599 Ligand binding site; other site 1208660005600 oligomer interface; other site 1208660005601 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1208660005602 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1208660005603 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1208660005605 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1208660005606 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1208660005607 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 1208660005608 generic binding surface II; other site 1208660005609 generic binding surface I; other site 1208660005610 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1208660005611 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1208660005612 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1208660005613 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 1208660005614 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1208660005615 putative ion selectivity filter; other site 1208660005616 putative pore gating glutamate residue; other site 1208660005617 putative H+/Cl- coupling transport residue; other site 1208660005618 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1208660005619 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 1208660005620 dimer interface [polypeptide binding]; other site 1208660005621 active site 1208660005622 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1208660005623 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 1208660005624 DNA-binding site [nucleotide binding]; DNA binding site 1208660005625 RNA-binding motif; other site 1208660005626 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1208660005627 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1208660005628 MG2 domain; Region: A2M_N; pfam01835 1208660005629 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1208660005630 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 1208660005631 surface patch; other site 1208660005632 thioester region; other site 1208660005633 specificity defining residues; other site 1208660005634 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 1208660005635 Transglycosylase; Region: Transgly; pfam00912 1208660005636 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1208660005637 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1208660005638 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1208660005639 Clp amino terminal domain; Region: Clp_N; pfam02861 1208660005640 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 1208660005641 Walker A motif; other site 1208660005642 ATP binding site [chemical binding]; other site 1208660005643 Walker B motif; other site 1208660005644 arginine finger; other site 1208660005645 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 1208660005646 Walker A motif; other site 1208660005647 ATP binding site [chemical binding]; other site 1208660005648 Walker B motif; other site 1208660005649 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1208660005650 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1208660005651 Paraquat-inducible protein A; Region: PqiA; pfam04403 1208660005652 Paraquat-inducible protein A; Region: PqiA; pfam04403 1208660005653 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1208660005654 mce related protein; Region: MCE; pfam02470 1208660005655 mce related protein; Region: MCE; pfam02470 1208660005656 mce related protein; Region: MCE; pfam02470 1208660005657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1208660005658 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1208660005659 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 1208660005660 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1208660005661 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1208660005662 Glutamate binding site [chemical binding]; other site 1208660005663 NAD binding site [chemical binding]; other site 1208660005664 catalytic residues [active] 1208660005665 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208660005666 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 1208660005667 dimerization interface [polypeptide binding]; other site 1208660005668 ligand binding site [chemical binding]; other site 1208660005669 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660005670 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 1208660005671 TM-ABC transporter signature motif; other site 1208660005672 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208660005673 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 1208660005674 TM-ABC transporter signature motif; other site 1208660005675 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208660005676 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208660005677 Walker A/P-loop; other site 1208660005678 ATP binding site [chemical binding]; other site 1208660005679 Q-loop/lid; other site 1208660005680 ABC transporter signature motif; other site 1208660005681 Walker B; other site 1208660005682 D-loop; other site 1208660005683 H-loop/switch region; other site 1208660005684 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208660005685 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660005686 Walker A/P-loop; other site 1208660005687 ATP binding site [chemical binding]; other site 1208660005688 Q-loop/lid; other site 1208660005689 ABC transporter signature motif; other site 1208660005690 Walker B; other site 1208660005691 D-loop; other site 1208660005692 H-loop/switch region; other site 1208660005693 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 1208660005694 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208660005695 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 1208660005696 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660005697 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660005698 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1208660005699 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660005700 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660005701 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1208660005702 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1208660005703 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1208660005704 Membrane fusogenic activity; Region: BMFP; pfam04380 1208660005705 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1208660005706 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1208660005707 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1208660005708 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1208660005709 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1208660005710 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1208660005711 23S rRNA binding site [nucleotide binding]; other site 1208660005712 L21 binding site [polypeptide binding]; other site 1208660005713 L13 binding site [polypeptide binding]; other site 1208660005714 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1208660005715 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1208660005716 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 1208660005717 dimer interface [polypeptide binding]; other site 1208660005718 motif 1; other site 1208660005719 active site 1208660005720 motif 2; other site 1208660005721 motif 3; other site 1208660005722 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1208660005723 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 1208660005724 putative tRNA-binding site [nucleotide binding]; other site 1208660005725 B3/4 domain; Region: B3_4; pfam03483 1208660005726 tRNA synthetase B5 domain; Region: B5; smart00874 1208660005727 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 1208660005728 dimer interface [polypeptide binding]; other site 1208660005729 motif 1; other site 1208660005730 motif 3; other site 1208660005731 motif 2; other site 1208660005732 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1208660005733 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 1208660005734 IHF - DNA interface [nucleotide binding]; other site 1208660005735 IHF dimer interface [polypeptide binding]; other site 1208660005736 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1208660005737 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1208660005738 DNA binding residues [nucleotide binding] 1208660005739 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 1208660005740 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 1208660005741 S-adenosylmethionine binding site [chemical binding]; other site 1208660005742 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1208660005743 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208660005744 Coenzyme A binding pocket [chemical binding]; other site 1208660005745 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1208660005747 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208660005748 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1208660005749 AsnC family; Region: AsnC_trans_reg; pfam01037 1208660005752 Entericidin EcnA/B family; Region: Entericidin; cl02322 1208660005753 aspartate carbamoyltransferase; Provisional; Region: PRK11891 1208660005754 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1208660005755 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1208660005756 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1208660005757 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660005758 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660005759 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208660005760 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660005761 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 1208660005762 dimerization interface [polypeptide binding]; other site 1208660005763 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 1208660005764 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 1208660005765 active site 1208660005766 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1208660005767 DUF35 OB-fold domain; Region: DUF35; pfam01796 1208660005768 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 1208660005769 active site 2 [active] 1208660005770 active site 1 [active] 1208660005771 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208660005772 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660005773 NAD(P) binding site [chemical binding]; other site 1208660005774 active site 1208660005775 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1208660005776 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1208660005777 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1208660005778 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660005779 dimer interface [polypeptide binding]; other site 1208660005780 conserved gate region; other site 1208660005781 putative PBP binding loops; other site 1208660005782 ABC-ATPase subunit interface; other site 1208660005783 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660005784 dimer interface [polypeptide binding]; other site 1208660005785 conserved gate region; other site 1208660005786 putative PBP binding loops; other site 1208660005787 ABC-ATPase subunit interface; other site 1208660005788 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1208660005789 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660005790 Walker A/P-loop; other site 1208660005791 ATP binding site [chemical binding]; other site 1208660005792 Q-loop/lid; other site 1208660005793 ABC transporter signature motif; other site 1208660005794 Walker B; other site 1208660005795 D-loop; other site 1208660005796 H-loop/switch region; other site 1208660005797 TOBE domain; Region: TOBE_2; pfam08402 1208660005798 enoyl-CoA hydratase; Provisional; Region: PRK06144 1208660005799 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 1208660005800 substrate binding site [chemical binding]; other site 1208660005801 oxyanion hole (OAH) forming residues; other site 1208660005802 trimer interface [polypeptide binding]; other site 1208660005803 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660005804 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660005805 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 1208660005806 putative substrate translocation pore; other site 1208660005807 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1208660005808 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1208660005809 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 1208660005810 dimer interface [polypeptide binding]; other site 1208660005811 phosphorylation site [posttranslational modification] 1208660005812 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 1208660005813 ATP binding site [chemical binding]; other site 1208660005814 G-X-G motif; other site 1208660005815 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208660005816 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 1208660005817 active site 1208660005818 phosphorylation site [posttranslational modification] 1208660005819 intermolecular recognition site; other site 1208660005820 dimerization interface [polypeptide binding]; other site 1208660005821 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 1208660005822 DNA binding site [nucleotide binding] 1208660005823 recombinase A; Provisional; Region: recA; PRK09354 1208660005824 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 1208660005825 hexamer interface [polypeptide binding]; other site 1208660005826 Walker A motif; other site 1208660005827 ATP binding site [chemical binding]; other site 1208660005828 Walker B motif; other site 1208660005829 RecX family; Region: RecX; cl00936 1208660005830 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1208660005831 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660005832 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 1208660005833 putative dimerization interface [polypeptide binding]; other site 1208660005834 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1208660005835 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 1208660005836 THF binding site; other site 1208660005837 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 1208660005838 substrate binding site [chemical binding]; other site 1208660005839 THF binding site; other site 1208660005840 zinc-binding site [ion binding]; other site 1208660005842 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1208660005843 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1208660005844 CoA-ligase; Region: Ligase_CoA; pfam00549 1208660005845 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1208660005846 CoA binding domain; Region: CoA_binding; smart00881 1208660005847 CoA-ligase; Region: Ligase_CoA; pfam00549 1208660005848 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1208660005849 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1208660005850 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1208660005851 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 1208660005852 domain interfaces; other site 1208660005853 active site 1208660005854 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 1208660005855 active site 1208660005856 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 1208660005857 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1208660005858 HemY protein N-terminus; Region: HemY_N; pfam07219 1208660005859 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 1208660005860 dimer interface [polypeptide binding]; other site 1208660005861 substrate binding site [chemical binding]; other site 1208660005862 metal binding sites [ion binding]; metal-binding site 1208660005863 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 1208660005864 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1208660005865 Predicted small secreted protein [Function unknown]; Region: COG5510 1208660005866 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660005867 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660005868 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1208660005869 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1208660005871 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1208660005872 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 1208660005873 phosphopeptide binding site; other site 1208660005874 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1208660005875 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 1208660005876 ATP binding site [chemical binding]; other site 1208660005877 Walker A motif; other site 1208660005878 hexamer interface [polypeptide binding]; other site 1208660005879 Walker B motif; other site 1208660005880 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1208660005881 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1208660005882 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1208660005883 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1208660005884 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1208660005885 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 1208660005886 putative active site [active] 1208660005887 putative substrate binding site [chemical binding]; other site 1208660005888 ATP binding site [chemical binding]; other site 1208660005889 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1208660005890 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 1208660005891 FMN binding site [chemical binding]; other site 1208660005892 active site 1208660005893 catalytic residues [active] 1208660005894 substrate binding site [chemical binding]; other site 1208660005896 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1208660005897 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 1208660005898 hypothetical protein; Validated; Region: PRK00029 1208660005899 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1208660005900 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208660005901 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 1208660005902 active site 1208660005903 phosphorylation site [posttranslational modification] 1208660005904 intermolecular recognition site; other site 1208660005905 dimerization interface [polypeptide binding]; other site 1208660005906 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 1208660005907 DNA binding site [nucleotide binding] 1208660005908 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208660005909 metal binding site [ion binding]; metal-binding site 1208660005910 active site 1208660005911 I-site; other site 1208660005912 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 1208660005913 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1208660005914 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 1208660005915 dimer interface [polypeptide binding]; other site 1208660005916 phosphorylation site [posttranslational modification] 1208660005917 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 1208660005918 ATP binding site [chemical binding]; other site 1208660005919 Mg2+ binding site [ion binding]; other site 1208660005920 G-X-G motif; other site 1208660005921 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208660005922 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208660005923 I-site; other site 1208660005924 active site 1208660005925 metal binding site [ion binding]; metal-binding site 1208660005926 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 1208660005927 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1208660005928 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1208660005929 Tetramer interface [polypeptide binding]; other site 1208660005930 active site 1208660005931 FMN-binding site [chemical binding]; other site 1208660005932 Peptidase family M48; Region: Peptidase_M48; pfam01435 1208660005933 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 1208660005934 Walker A motif; other site 1208660005935 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1208660005936 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 1208660005937 dimer interface [polypeptide binding]; other site 1208660005938 putative functional site; other site 1208660005939 putative MPT binding site; other site 1208660005940 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1208660005941 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1208660005942 GTP binding site; other site 1208660005943 Domain of unknown function DUF59; Region: DUF59; pfam01883 1208660005944 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 1208660005945 Walker A motif; other site 1208660005946 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 1208660005947 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 1208660005948 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1208660005949 4Fe-4S binding domain; Region: Fer4; pfam00037 1208660005950 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1208660005951 4Fe-4S binding domain; Region: Fer4; pfam00037 1208660005952 4Fe-4S binding domain; Region: Fer4; pfam00037 1208660005953 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1208660005956 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1208660005957 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 1208660005958 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1208660005959 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1208660005960 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1208660005961 PBP superfamily domain; Region: PBP_like; pfam12727 1208660005962 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660005963 dimer interface [polypeptide binding]; other site 1208660005964 conserved gate region; other site 1208660005965 putative PBP binding loops; other site 1208660005966 ABC-ATPase subunit interface; other site 1208660005967 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1208660005968 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208660005969 Walker A/P-loop; other site 1208660005970 ATP binding site [chemical binding]; other site 1208660005971 Q-loop/lid; other site 1208660005972 ABC transporter signature motif; other site 1208660005973 Walker B; other site 1208660005974 D-loop; other site 1208660005975 H-loop/switch region; other site 1208660005976 PBP superfamily domain; Region: PBP_like_2; pfam12849 1208660005977 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1208660005978 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1208660005979 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1208660005980 substrate binding site [chemical binding]; other site 1208660005981 ligand binding site [chemical binding]; other site 1208660005982 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1208660005983 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 1208660005984 substrate binding site [chemical binding]; other site 1208660005985 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1208660005986 tartrate dehydrogenase; Region: TTC; TIGR02089 1208660005987 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1208660005988 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1208660005989 FimV N-terminal domain; Region: FimV_core; TIGR03505 1208660005990 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1208660005991 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1208660005992 dimerization interface 3.5A [polypeptide binding]; other site 1208660005993 active site 1208660005994 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1208660005995 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208660005996 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1208660005997 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1208660005998 DctM-like transporters; Region: DctM; pfam06808 1208660005999 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208660006000 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 1208660006001 active site 1208660006002 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 1208660006003 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1208660006004 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1208660006005 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1208660006006 MlrC C-terminus; Region: MlrC_C; pfam07171 1208660006007 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660006008 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1208660006009 YheO-like PAS domain; Region: PAS_6; pfam08348 1208660006010 HTH domain; Region: HTH_22; pfam13309 1208660006011 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 1208660006012 amphipathic channel; other site 1208660006013 Asn-Pro-Ala signature motifs; other site 1208660006014 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 1208660006016 Response regulator receiver domain; Region: Response_reg; pfam00072 1208660006017 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 1208660006018 active site 1208660006019 phosphorylation site [posttranslational modification] 1208660006020 intermolecular recognition site; other site 1208660006021 dimerization interface [polypeptide binding]; other site 1208660006022 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 1208660006023 DNA binding residues [nucleotide binding] 1208660006024 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1208660006025 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 1208660006026 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1208660006027 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 1208660006028 active site 1208660006029 dimer interface [polypeptide binding]; other site 1208660006030 motif 1; other site 1208660006031 motif 2; other site 1208660006032 motif 3; other site 1208660006033 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 1208660006034 anticodon binding site; other site 1208660006035 translation initiation factor IF-3; Region: infC; TIGR00168 1208660006036 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1208660006037 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1208660006038 glutathione synthetase; Provisional; Region: PRK05246 1208660006039 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1208660006040 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1208660006041 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 1208660006042 active pocket/dimerization site; other site 1208660006043 active site 1208660006044 phosphorylation site [posttranslational modification] 1208660006045 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 1208660006046 dimerization domain swap beta strand [polypeptide binding]; other site 1208660006047 regulatory protein interface [polypeptide binding]; other site 1208660006048 active site 1208660006049 regulatory phosphorylation site [posttranslational modification]; other site 1208660006050 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1208660006051 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1208660006052 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1208660006053 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1208660006054 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1208660006055 ornithine cyclodeaminase; Validated; Region: PRK06141 1208660006056 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1208660006057 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208660006058 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 1208660006059 putative ligand binding site [chemical binding]; other site 1208660006060 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 1208660006061 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 1208660006062 substrate binding pocket [chemical binding]; other site 1208660006063 membrane-bound complex binding site; other site 1208660006064 hinge residues; other site 1208660006065 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660006066 dimer interface [polypeptide binding]; other site 1208660006067 conserved gate region; other site 1208660006068 putative PBP binding loops; other site 1208660006069 ABC-ATPase subunit interface; other site 1208660006070 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660006071 dimer interface [polypeptide binding]; other site 1208660006072 conserved gate region; other site 1208660006073 putative PBP binding loops; other site 1208660006074 ABC-ATPase subunit interface; other site 1208660006075 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208660006076 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208660006077 Walker A/P-loop; other site 1208660006078 ATP binding site [chemical binding]; other site 1208660006079 Q-loop/lid; other site 1208660006080 ABC transporter signature motif; other site 1208660006081 Walker B; other site 1208660006082 D-loop; other site 1208660006083 H-loop/switch region; other site 1208660006084 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1208660006085 trimer interface [polypeptide binding]; other site 1208660006086 active site 1208660006087 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1208660006088 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1208660006089 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1208660006090 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208660006091 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 1208660006092 putative DNA binding site [nucleotide binding]; other site 1208660006093 putative Zn2+ binding site [ion binding]; other site 1208660006094 AsnC family; Region: AsnC_trans_reg; pfam01037 1208660006095 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 1208660006096 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1208660006097 Flavoprotein; Region: Flavoprotein; pfam02441 1208660006098 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1208660006099 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1208660006100 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1208660006101 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1208660006102 active site 1208660006103 HIGH motif; other site 1208660006104 nucleotide binding site [chemical binding]; other site 1208660006105 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1208660006106 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1208660006107 active site 1208660006108 KMSKS motif; other site 1208660006109 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1208660006110 tRNA binding surface [nucleotide binding]; other site 1208660006111 anticodon binding site; other site 1208660006112 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1208660006113 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1208660006114 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1208660006115 active site 1208660006116 Riboflavin kinase; Region: Flavokinase; smart00904 1208660006117 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1208660006118 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1208660006119 active site 1208660006120 substrate binding site [chemical binding]; other site 1208660006121 cosubstrate binding site; other site 1208660006122 catalytic site [active] 1208660006123 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1208660006124 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 1208660006125 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 1208660006126 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1208660006127 Di-iron ligands [ion binding]; other site 1208660006128 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1208660006129 Part of AAA domain; Region: AAA_19; pfam13245 1208660006130 Family description; Region: UvrD_C_2; pfam13538 1208660006131 Secretin and TonB N terminus short domain; Region: STN; smart00965 1208660006132 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 1208660006133 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1208660006134 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1208660006135 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208660006136 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208660006137 ABC transporter; Region: ABC_tran_2; pfam12848 1208660006138 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208660006139 HemK family putative methylases; Region: hemK_fam; TIGR00536 1208660006140 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 1208660006141 S-adenosylmethionine binding site [chemical binding]; other site 1208660006142 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1208660006143 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1208660006144 metal binding site [ion binding]; metal-binding site 1208660006145 dimer interface [polypeptide binding]; other site 1208660006146 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1208660006147 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 1208660006148 trimer interface [polypeptide binding]; other site 1208660006149 active site 1208660006150 substrate binding site [chemical binding]; other site 1208660006151 CoA binding site [chemical binding]; other site 1208660006152 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1208660006153 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 1208660006154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660006155 homodimer interface [polypeptide binding]; other site 1208660006156 catalytic residue [active] 1208660006157 integrase; Provisional; Region: int; PHA02601 1208660006158 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 1208660006159 catalytic residues [active] 1208660006160 Int/Topo IB signature motif; other site 1208660006161 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1208660006162 HNH endonuclease; Region: HNH_3; pfam13392 1208660006163 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 1208660006164 DNA binding site [nucleotide binding] 1208660006165 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1208660006166 Plant organelle RNA recognition domain; Region: PORR; pfam11955 1208660006167 RecT family; Region: RecT; pfam03837 1208660006168 Helix-turn-helix domain; Region: HTH_36; pfam13730 1208660006169 Loader and inhibitor of phage G40P; Region: Inhibitor_G39P; pfam11417 1208660006170 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; cl17280 1208660006171 active site 1208660006172 putative DNA-binding cleft [nucleotide binding]; other site 1208660006173 dimer interface [polypeptide binding]; other site 1208660006174 Transposase; Region: HTH_Tnp_1; cl17663 1208660006175 Phage terminase large subunit; Region: Terminase_3; cl12054 1208660006176 Terminase-like family; Region: Terminase_6; pfam03237 1208660006177 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 1208660006178 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1208660006179 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 1208660006180 HNH endonuclease; Region: HNH_3; pfam13392 1208660006181 Phage tail protein; Region: Phage_tail_3; pfam08813 1208660006182 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 1208660006183 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 1208660006184 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 1208660006185 Phage-related minor tail protein [Function unknown]; Region: COG5281 1208660006186 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1208660006187 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 1208660006188 NlpC/P60 family; Region: NLPC_P60; cl17555 1208660006189 Phage-related protein, tail component [Function unknown]; Region: COG4733 1208660006190 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1208660006191 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1208660006192 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1208660006193 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1208660006194 catalytic residue [active] 1208660006195 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 1208660006196 translocation protein TolB; Provisional; Region: tolB; PRK02889 1208660006197 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1208660006198 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208660006199 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 1208660006200 DNA-binding site [nucleotide binding]; DNA binding site 1208660006201 RNA-binding motif; other site 1208660006202 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1208660006203 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 1208660006204 DNA-binding site [nucleotide binding]; DNA binding site 1208660006205 RNA-binding motif; other site 1208660006206 hypothetical protein; Provisional; Region: PRK05208 1208660006207 trigger factor; Provisional; Region: tig; PRK01490 1208660006208 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1208660006209 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1208660006210 Clp protease; Region: CLP_protease; pfam00574 1208660006211 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1208660006212 oligomer interface [polypeptide binding]; other site 1208660006213 active site residues [active] 1208660006214 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1208660006215 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1208660006216 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1208660006217 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 1208660006218 Walker A motif; other site 1208660006219 ATP binding site [chemical binding]; other site 1208660006220 Walker B motif; other site 1208660006221 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1208660006222 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1208660006223 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 1208660006224 Walker A motif; other site 1208660006225 ATP binding site [chemical binding]; other site 1208660006226 Walker B motif; other site 1208660006227 arginine finger; other site 1208660006228 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1208660006229 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660006230 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660006231 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1208660006232 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660006233 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 1208660006234 dimerization interface [polypeptide binding]; other site 1208660006235 substrate binding pocket [chemical binding]; other site 1208660006236 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660006237 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660006238 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660006239 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 1208660006240 putative active site [active] 1208660006241 putative catalytic site [active] 1208660006242 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208660006243 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 1208660006244 substrate binding site [chemical binding]; other site 1208660006245 oxyanion hole (OAH) forming residues; other site 1208660006246 trimer interface [polypeptide binding]; other site 1208660006247 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1208660006248 DUF35 OB-fold domain; Region: DUF35; pfam01796 1208660006249 thiolase; Provisional; Region: PRK06158 1208660006250 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 1208660006251 active site 1208660006252 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1208660006253 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660006254 NAD(P) binding site [chemical binding]; other site 1208660006255 active site 1208660006256 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208660006257 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208660006258 active site 1208660006260 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 1208660006262 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660006264 LexA repressor; Validated; Region: PRK00215 1208660006265 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1208660006266 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 1208660006267 Catalytic site [active] 1208660006268 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1208660006269 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 1208660006270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660006271 homodimer interface [polypeptide binding]; other site 1208660006272 catalytic residue [active] 1208660006273 excinuclease ABC subunit B; Provisional; Region: PRK05298 1208660006274 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 1208660006275 ATP binding site [chemical binding]; other site 1208660006276 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 1208660006277 nucleotide binding region [chemical binding]; other site 1208660006278 ATP-binding site [chemical binding]; other site 1208660006279 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1208660006280 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1208660006281 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1208660006282 active site 1208660006283 Predicted transcriptional regulator [Transcription]; Region: COG1959 1208660006284 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1208660006285 cysteine desulfurase; Provisional; Region: PRK14012 1208660006286 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1208660006287 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208660006288 catalytic residue [active] 1208660006289 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1208660006290 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1208660006291 trimerization site [polypeptide binding]; other site 1208660006292 active site 1208660006293 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1208660006294 co-chaperone HscB; Provisional; Region: hscB; PRK03578 1208660006295 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 1208660006296 HSP70 interaction site [polypeptide binding]; other site 1208660006297 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1208660006298 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1208660006299 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1208660006300 nucleotide binding site [chemical binding]; other site 1208660006301 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1208660006302 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 1208660006303 catalytic loop [active] 1208660006304 iron binding site [ion binding]; other site 1208660006305 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 1208660006306 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 1208660006307 active site 1208660006308 dimer interfaces [polypeptide binding]; other site 1208660006309 catalytic residues [active] 1208660006310 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208660006311 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 1208660006312 substrate binding site [chemical binding]; other site 1208660006313 oxyanion hole (OAH) forming residues; other site 1208660006314 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 1208660006316 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 1208660006317 TM-ABC transporter signature motif; other site 1208660006318 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208660006319 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 1208660006320 TM-ABC transporter signature motif; other site 1208660006321 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 1208660006322 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208660006323 putative ligand binding site [chemical binding]; other site 1208660006325 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1208660006326 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208660006327 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1208660006328 acyl-activating enzyme (AAE) consensus motif; other site 1208660006329 putative AMP binding site [chemical binding]; other site 1208660006330 putative active site [active] 1208660006331 putative CoA binding site [chemical binding]; other site 1208660006333 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1208660006334 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 1208660006335 dimer interface [polypeptide binding]; other site 1208660006336 putative anticodon binding site; other site 1208660006337 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 1208660006338 motif 1; other site 1208660006339 active site 1208660006340 motif 2; other site 1208660006341 motif 3; other site 1208660006342 short chain dehydrogenase; Provisional; Region: PRK07023 1208660006343 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660006344 NAD(P) binding site [chemical binding]; other site 1208660006345 active site 1208660006347 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1208660006348 DHH family; Region: DHH; pfam01368 1208660006349 DHHA1 domain; Region: DHHA1; pfam02272 1208660006350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 1208660006351 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1208660006352 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1208660006353 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1208660006354 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1208660006355 Walker A/P-loop; other site 1208660006356 ATP binding site [chemical binding]; other site 1208660006357 Q-loop/lid; other site 1208660006358 ABC transporter signature motif; other site 1208660006359 Walker B; other site 1208660006360 D-loop; other site 1208660006361 H-loop/switch region; other site 1208660006362 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1208660006363 active site 1208660006364 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 1208660006365 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208660006367 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1208660006368 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1208660006369 Competence protein; Region: Competence; pfam03772 1208660006370 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1208660006371 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1208660006372 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1208660006373 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1208660006374 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1208660006375 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1208660006376 active site 1208660006377 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1208660006378 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1208660006379 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1208660006380 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1208660006381 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208660006382 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1208660006383 DctM-like transporters; Region: DctM; pfam06808 1208660006384 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208660006385 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208660006386 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1208660006387 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 1208660006388 dimerization interface [polypeptide binding]; other site 1208660006389 ATP binding site [chemical binding]; other site 1208660006390 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 1208660006391 dimerization interface [polypeptide binding]; other site 1208660006392 ATP binding site [chemical binding]; other site 1208660006393 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1208660006394 putative active site [active] 1208660006395 catalytic triad [active] 1208660006396 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1208660006397 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1208660006398 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1208660006399 hypothetical protein; Provisional; Region: PRK07907 1208660006400 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 1208660006401 metal binding site [ion binding]; metal-binding site 1208660006402 putative dimer interface [polypeptide binding]; other site 1208660006403 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 1208660006404 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 1208660006405 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1208660006406 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1208660006407 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660006408 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1208660006409 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1208660006410 Low affinity iron permease; Region: Iron_permease; cl12096 1208660006412 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 1208660006413 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1208660006414 catalytic residues [active] 1208660006415 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 1208660006416 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 1208660006417 dimerization domain [polypeptide binding]; other site 1208660006418 dimer interface [polypeptide binding]; other site 1208660006419 catalytic residues [active] 1208660006420 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1208660006421 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 1208660006422 dimerization interface [polypeptide binding]; other site 1208660006423 DNA binding residues [nucleotide binding] 1208660006424 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208660006425 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; cl01461 1208660006426 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1208660006427 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 1208660006428 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 1208660006429 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 1208660006430 active site 1208660006431 GMP synthase; Reviewed; Region: guaA; PRK00074 1208660006432 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1208660006433 AMP/PPi binding site [chemical binding]; other site 1208660006434 candidate oxyanion hole; other site 1208660006435 catalytic triad [active] 1208660006436 potential glutamine specificity residues [chemical binding]; other site 1208660006437 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 1208660006438 ATP Binding subdomain [chemical binding]; other site 1208660006439 Ligand Binding sites [chemical binding]; other site 1208660006440 Dimerization subdomain; other site 1208660006441 integrase; Provisional; Region: PRK09692 1208660006442 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1208660006443 active site 1208660006444 Int/Topo IB signature motif; other site 1208660006445 putative transcriptional regulator; Provisional; Region: tfx; cl17550 1208660006446 AAA domain; Region: AAA_25; pfam13481 1208660006447 Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent; Region: repA; cd01125 1208660006448 Walker A motif; other site 1208660006449 NTP binding site [chemical binding]; other site 1208660006450 hexamer interface [polypeptide binding]; other site 1208660006451 Walker B motif; other site 1208660006452 Replication protein C (RepC); Region: RepC; pfam06504 1208660006453 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 1208660006454 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1208660006455 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1208660006456 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1208660006457 conjugal transfer protein TrbJ; Provisional; Region: PRK13879 1208660006458 entry exclusion lipoprotein TrbK; Region: TrbK_RP4; TIGR04359 1208660006459 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 1208660006460 Toxin of toxin-antitoxin type 1 system; Region: plasmid_Toxin; pfam12703 1208660006461 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1208660006462 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1208660006463 Helix-turn-helix domain; Region: HTH_17; pfam12728 1208660006464 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1208660006465 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1208660006466 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 1208660006467 ATP binding site [chemical binding]; other site 1208660006468 putative Mg++ binding site [ion binding]; other site 1208660006469 T5orf172 domain; Region: T5orf172; pfam10544 1208660006470 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1208660006471 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 1208660006472 active site 1208660006473 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660006474 Walker A/P-loop; other site 1208660006475 ATP binding site [chemical binding]; other site 1208660006476 AAA domain; Region: AAA_21; pfam13304 1208660006477 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1208660006478 Divergent AAA domain; Region: AAA_4; pfam04326 1208660006479 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1208660006480 integrase; Provisional; Region: PRK09692 1208660006481 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1208660006482 active site 1208660006483 Int/Topo IB signature motif; other site 1208660006484 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1208660006485 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 1208660006486 AAA domain; Region: AAA_25; pfam13481 1208660006487 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 1208660006488 Walker A motif; other site 1208660006489 ATP binding site [chemical binding]; other site 1208660006490 Walker B motif; other site 1208660006491 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 1208660006492 hypothetical protein; Region: PHA00664 1208660006493 hypothetical protein; Region: PHA00660 1208660006494 Mitochondrial ribosomal protein subunit L20; Region: MRP-L20; pfam12824 1208660006495 virion protein; Provisional; Region: V; PHA02564 1208660006496 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 1208660006497 structural protein; Region: PHA01972 1208660006498 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660006499 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660006501 Predicted transcriptional regulators [Transcription]; Region: COG1733 1208660006502 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1208660006504 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1208660006505 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 1208660006506 putative substrate translocation pore; other site 1208660006508 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660006509 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660006510 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 1208660006511 putative effector binding pocket; other site 1208660006512 putative dimerization interface [polypeptide binding]; other site 1208660006513 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1208660006514 conserved cys residue [active] 1208660006515 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1208660006516 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1208660006517 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1208660006518 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 1208660006519 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1208660006520 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1208660006521 Beta-Casp domain; Region: Beta-Casp; smart01027 1208660006522 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1208660006523 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1208660006524 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1208660006525 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208660006526 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208660006527 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660006528 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1208660006529 Amidohydrolase; Region: Amidohydro_2; pfam04909 1208660006530 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660006531 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660006534 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1208660006535 DUF35 OB-fold domain; Region: DUF35; pfam01796 1208660006536 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1208660006537 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 1208660006538 active site 1208660006539 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1208660006540 succinic semialdehyde dehydrogenase; Region: PLN02278 1208660006541 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1208660006542 tetramerization interface [polypeptide binding]; other site 1208660006543 NAD(P) binding site [chemical binding]; other site 1208660006544 catalytic residues [active] 1208660006545 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1208660006546 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660006547 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 1208660006548 substrate binding pocket [chemical binding]; other site 1208660006549 dimerization interface [polypeptide binding]; other site 1208660006550 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1208660006551 Amidohydrolase; Region: Amidohydro_2; pfam04909 1208660006552 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660006554 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 1208660006555 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660006556 DNA-binding site [nucleotide binding]; DNA binding site 1208660006557 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 1208660006558 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660006559 homodimer interface [polypeptide binding]; other site 1208660006560 catalytic residue [active] 1208660006561 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 1208660006562 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1208660006564 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 1208660006565 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 1208660006566 metal binding site [ion binding]; metal-binding site 1208660006567 dimer interface [polypeptide binding]; other site 1208660006568 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1208660006569 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 1208660006570 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208660006571 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660006572 dimer interface [polypeptide binding]; other site 1208660006573 conserved gate region; other site 1208660006574 putative PBP binding loops; other site 1208660006575 ABC-ATPase subunit interface; other site 1208660006576 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1208660006577 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1208660006578 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660006579 dimer interface [polypeptide binding]; other site 1208660006580 conserved gate region; other site 1208660006581 putative PBP binding loops; other site 1208660006582 ABC-ATPase subunit interface; other site 1208660006584 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1208660006585 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1208660006586 DNA binding site [nucleotide binding] 1208660006587 domain linker motif; other site 1208660006588 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 1208660006589 dimerization interface [polypeptide binding]; other site 1208660006590 ligand binding site [chemical binding]; other site 1208660006591 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 1208660006592 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1208660006593 DNA binding residues [nucleotide binding] 1208660006594 putative dimer interface [polypeptide binding]; other site 1208660006595 putative metal binding residues [ion binding]; other site 1208660006596 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 1208660006597 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660006598 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660006600 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660006601 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660006602 DNA-binding site [nucleotide binding]; DNA binding site 1208660006603 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208660006604 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1208660006605 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660006606 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1208660006607 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208660006608 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1208660006609 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1208660006610 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1208660006611 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208660006612 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660006613 DNA-binding site [nucleotide binding]; DNA binding site 1208660006614 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1208660006615 Bacteriophage protein GP30.3; Region: Phage_30_3; cl17603 1208660006616 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1208660006617 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1208660006618 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1208660006621 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1208660006622 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208660006623 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660006624 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660006625 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 1208660006626 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1208660006627 putative active site [active] 1208660006628 putative metal binding site [ion binding]; other site 1208660006629 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1208660006630 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 1208660006631 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1208660006632 active site 1208660006633 catalytic tetrad [active] 1208660006634 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1208660006635 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 1208660006636 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 1208660006637 Walker A motif; other site 1208660006638 ATP binding site [chemical binding]; other site 1208660006639 Walker B motif; other site 1208660006640 arginine finger; other site 1208660006641 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1208660006642 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1208660006643 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208660006644 NAD(P) binding site [chemical binding]; other site 1208660006645 catalytic residues [active] 1208660006646 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1208660006647 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1208660006649 Predicted membrane protein [Function unknown]; Region: COG2733 1208660006650 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660006651 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 1208660006652 dimerization interface [polypeptide binding]; other site 1208660006654 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 1208660006655 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1208660006656 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1208660006657 conserved cys residue [active] 1208660006658 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208660006659 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208660006660 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 1208660006661 Domain of unknown function DUF302; Region: DUF302; cl01364 1208660006662 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208660006663 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 1208660006664 dimerization interface [polypeptide binding]; other site 1208660006665 putative DNA binding site [nucleotide binding]; other site 1208660006666 putative Zn2+ binding site [ion binding]; other site 1208660006667 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 1208660006668 putative hydrophobic ligand binding site [chemical binding]; other site 1208660006669 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1208660006670 putative transporter; Provisional; Region: PRK11660 1208660006671 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1208660006672 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 1208660006673 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208660006674 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660006675 DNA-binding site [nucleotide binding]; DNA binding site 1208660006676 FCD domain; Region: FCD; pfam07729 1208660006677 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1208660006678 ZIP Zinc transporter; Region: Zip; pfam02535 1208660006679 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1208660006680 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1208660006681 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660006682 Walker A/P-loop; other site 1208660006683 ATP binding site [chemical binding]; other site 1208660006684 Q-loop/lid; other site 1208660006685 ABC transporter signature motif; other site 1208660006686 Walker B; other site 1208660006687 D-loop; other site 1208660006688 H-loop/switch region; other site 1208660006689 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208660006690 Coenzyme A binding pocket [chemical binding]; other site 1208660006691 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1208660006692 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 1208660006693 putative substrate translocation pore; other site 1208660006694 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208660006695 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 1208660006696 dimer interface [polypeptide binding]; other site 1208660006697 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1208660006699 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1208660006700 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1208660006701 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208660006702 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1208660006703 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1208660006704 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1208660006706 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 1208660006707 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 1208660006708 catalytic loop [active] 1208660006709 iron binding site [ion binding]; other site 1208660006710 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1208660006711 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1208660006712 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660006713 LysR family transcriptional regulator; Provisional; Region: PRK14997 1208660006714 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 1208660006715 putative effector binding pocket; other site 1208660006716 putative dimerization interface [polypeptide binding]; other site 1208660006717 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1208660006718 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1208660006719 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1208660006720 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1208660006721 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1208660006722 glutathione reductase; Validated; Region: PRK06116 1208660006723 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1208660006724 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208660006725 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1208660006727 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 1208660006728 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 1208660006729 C-terminal domain interface [polypeptide binding]; other site 1208660006730 GSH binding site (G-site) [chemical binding]; other site 1208660006731 dimer interface [polypeptide binding]; other site 1208660006732 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1208660006733 N-terminal domain interface [polypeptide binding]; other site 1208660006734 putative dimer interface [polypeptide binding]; other site 1208660006735 active site 1208660006736 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 1208660006737 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660006738 DNA-binding site [nucleotide binding]; DNA binding site 1208660006739 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 1208660006740 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660006741 homodimer interface [polypeptide binding]; other site 1208660006742 catalytic residue [active] 1208660006743 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1208660006744 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1208660006746 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 1208660006747 catalytic residues [active] 1208660006748 allantoate amidohydrolase; Reviewed; Region: PRK12890 1208660006749 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1208660006750 active site 1208660006751 metal binding site [ion binding]; metal-binding site 1208660006752 dimer interface [polypeptide binding]; other site 1208660006753 multidrug efflux protein; Reviewed; Region: PRK01766 1208660006754 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1208660006755 cation binding site [ion binding]; other site 1208660006756 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 1208660006757 active site 1208660006758 substrate-binding site [chemical binding]; other site 1208660006759 metal-binding site [ion binding] 1208660006760 GTP binding site [chemical binding]; other site 1208660006761 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1208660006762 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 1208660006763 S-adenosylmethionine binding site [chemical binding]; other site 1208660006764 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1208660006765 putative active site [active] 1208660006769 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 1208660006770 putative catalytic site [active] 1208660006771 putative phosphate binding site [ion binding]; other site 1208660006772 active site 1208660006773 metal binding site A [ion binding]; metal-binding site 1208660006774 DNA binding site [nucleotide binding] 1208660006775 putative AP binding site [nucleotide binding]; other site 1208660006776 putative metal binding site B [ion binding]; other site 1208660006777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 1208660006778 NnrS protein; Region: NnrS; pfam05940 1208660006779 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 1208660006780 apolar tunnel; other site 1208660006781 heme binding site [chemical binding]; other site 1208660006782 dimerization interface [polypeptide binding]; other site 1208660006783 Rdx family; Region: Rdx; cl01407 1208660006784 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208660006785 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660006786 Walker A/P-loop; other site 1208660006787 ATP binding site [chemical binding]; other site 1208660006788 Q-loop/lid; other site 1208660006789 ABC transporter signature motif; other site 1208660006790 Walker B; other site 1208660006791 D-loop; other site 1208660006792 H-loop/switch region; other site 1208660006793 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1208660006794 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660006795 dimer interface [polypeptide binding]; other site 1208660006796 conserved gate region; other site 1208660006797 putative PBP binding loops; other site 1208660006798 ABC-ATPase subunit interface; other site 1208660006799 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1208660006800 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 1208660006801 substrate binding pocket [chemical binding]; other site 1208660006802 membrane-bound complex binding site; other site 1208660006803 hinge residues; other site 1208660006804 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1208660006805 Heavy-metal-associated domain; Region: HMA; pfam00403 1208660006806 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1208660006807 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1208660006808 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1208660006809 DNA binding residues [nucleotide binding] 1208660006810 dimer interface [polypeptide binding]; other site 1208660006811 putative metal binding site [ion binding]; other site 1208660006812 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 1208660006813 putative FMN binding site [chemical binding]; other site 1208660006814 argininosuccinate lyase; Provisional; Region: PRK00855 1208660006815 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1208660006816 active sites [active] 1208660006817 tetramer interface [polypeptide binding]; other site 1208660006819 NAD synthetase; Provisional; Region: PRK13981 1208660006820 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1208660006821 multimer interface [polypeptide binding]; other site 1208660006822 active site 1208660006823 catalytic triad [active] 1208660006824 protein interface 1 [polypeptide binding]; other site 1208660006825 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 1208660006826 homodimer interface [polypeptide binding]; other site 1208660006827 NAD binding pocket [chemical binding]; other site 1208660006828 ATP binding pocket [chemical binding]; other site 1208660006829 Mg binding site [ion binding]; other site 1208660006830 active-site loop [active] 1208660006831 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1208660006832 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1208660006833 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1208660006834 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 1208660006835 RNA binding surface [nucleotide binding]; other site 1208660006836 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 1208660006837 AAA domain; Region: AAA_17; pfam13207 1208660006838 AAA domain; Region: AAA_18; pfam13238 1208660006839 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660006840 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660006841 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 1208660006842 dimerization interface [polypeptide binding]; other site 1208660006843 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1208660006844 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1208660006845 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1208660006846 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 1208660006847 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208660006848 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660006849 dimer interface [polypeptide binding]; other site 1208660006850 conserved gate region; other site 1208660006851 putative PBP binding loops; other site 1208660006852 ABC-ATPase subunit interface; other site 1208660006853 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1208660006854 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660006855 dimer interface [polypeptide binding]; other site 1208660006856 conserved gate region; other site 1208660006857 putative PBP binding loops; other site 1208660006858 ABC-ATPase subunit interface; other site 1208660006859 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 1208660006860 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660006861 Walker A/P-loop; other site 1208660006862 ATP binding site [chemical binding]; other site 1208660006863 Q-loop/lid; other site 1208660006864 ABC transporter signature motif; other site 1208660006865 Walker B; other site 1208660006866 D-loop; other site 1208660006867 H-loop/switch region; other site 1208660006868 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208660006869 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660006870 Walker A/P-loop; other site 1208660006871 ATP binding site [chemical binding]; other site 1208660006872 Q-loop/lid; other site 1208660006873 ABC transporter signature motif; other site 1208660006874 Walker B; other site 1208660006875 D-loop; other site 1208660006876 H-loop/switch region; other site 1208660006877 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208660006879 YaeQ protein; Region: YaeQ; pfam07152 1208660006881 Chorismate lyase; Region: Chor_lyase; cl01230 1208660006882 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1208660006883 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 1208660006884 RNA binding surface [nucleotide binding]; other site 1208660006885 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1208660006886 active site 1208660006887 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660006888 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660006889 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 1208660006890 putative effector binding pocket; other site 1208660006891 dimerization interface [polypeptide binding]; other site 1208660006892 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1208660006893 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1208660006894 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208660006895 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1208660006896 Protein export membrane protein; Region: SecD_SecF; cl14618 1208660006897 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1208660006898 Predicted membrane protein [Function unknown]; Region: COG2261 1208660006899 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1208660006900 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 1208660006901 Cu(I) binding site [ion binding]; other site 1208660006902 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1208660006903 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1208660006904 active site 1208660006905 Zn binding site [ion binding]; other site 1208660006906 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 1208660006907 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1208660006908 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1208660006909 homodimer interface [polypeptide binding]; other site 1208660006910 NADP binding site [chemical binding]; other site 1208660006911 substrate binding site [chemical binding]; other site 1208660006912 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1208660006913 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 1208660006914 active site 1208660006915 phosphorylation site [posttranslational modification] 1208660006916 intermolecular recognition site; other site 1208660006917 dimerization interface [polypeptide binding]; other site 1208660006918 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 1208660006919 DNA binding residues [nucleotide binding] 1208660006920 dimerization interface [polypeptide binding]; other site 1208660006921 PAS domain S-box; Region: sensory_box; TIGR00229 1208660006922 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 1208660006923 putative active site [active] 1208660006924 heme pocket [chemical binding]; other site 1208660006925 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1208660006926 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 1208660006927 dimer interface [polypeptide binding]; other site 1208660006928 phosphorylation site [posttranslational modification] 1208660006929 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 1208660006930 ATP binding site [chemical binding]; other site 1208660006931 Mg2+ binding site [ion binding]; other site 1208660006932 G-X-G motif; other site 1208660006933 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1208660006934 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 1208660006935 dimer interface [polypeptide binding]; other site 1208660006936 TPP-binding site [chemical binding]; other site 1208660006937 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1208660006938 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1208660006939 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 1208660006940 E3 interaction surface; other site 1208660006941 lipoyl attachment site [posttranslational modification]; other site 1208660006942 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 1208660006943 E3 interaction surface; other site 1208660006944 lipoyl attachment site [posttranslational modification]; other site 1208660006945 e3 binding domain; Region: E3_binding; pfam02817 1208660006946 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1208660006947 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 1208660006948 E3 interaction surface; other site 1208660006949 lipoyl attachment site [posttranslational modification]; other site 1208660006950 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1208660006951 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1208660006952 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208660006953 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1208660006954 flagellin; Validated; Region: PRK06819 1208660006955 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1208660006956 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1208660006957 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1208660006958 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208660006959 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1208660006960 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 1208660006961 DNA binding residues [nucleotide binding] 1208660006964 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1208660006965 flagellar motor protein MotA; Validated; Region: PRK09110 1208660006966 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1208660006967 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1208660006968 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1208660006969 ligand binding site [chemical binding]; other site 1208660006970 Response regulator receiver domain; Region: Response_reg; pfam00072 1208660006971 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 1208660006972 active site 1208660006973 phosphorylation site [posttranslational modification] 1208660006974 intermolecular recognition site; other site 1208660006975 dimerization interface [polypeptide binding]; other site 1208660006976 chemotaxis protein CheA; Provisional; Region: PRK10547 1208660006977 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 1208660006978 putative binding surface; other site 1208660006979 active site 1208660006980 CheY binding; Region: CheY-binding; pfam09078 1208660006981 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1208660006982 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 1208660006983 ATP binding site [chemical binding]; other site 1208660006984 Mg2+ binding site [ion binding]; other site 1208660006985 G-X-G motif; other site 1208660006986 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 1208660006987 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 1208660006988 putative CheA interaction surface; other site 1208660006989 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 1208660006990 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1208660006991 dimer interface [polypeptide binding]; other site 1208660006992 ligand binding site [chemical binding]; other site 1208660006993 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 1208660006994 dimerization interface [polypeptide binding]; other site 1208660006995 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1208660006996 dimer interface [polypeptide binding]; other site 1208660006997 putative CheW interface [polypeptide binding]; other site 1208660007000 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1208660007001 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 1208660007002 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1208660007003 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1208660007004 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1208660007005 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1208660007006 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1208660007007 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 1208660007008 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1208660007009 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 1208660007010 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 1208660007011 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 1208660007012 Walker A motif/ATP binding site; other site 1208660007013 Walker B motif; other site 1208660007015 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1208660007016 FliG C-terminal domain; Region: FliG_C; pfam01706 1208660007017 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1208660007018 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1208660007019 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1208660007020 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 1208660007021 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1208660007022 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1208660007023 Flagellar protein FliT; Region: FliT; pfam05400 1208660007024 Flagellar protein FliS; Region: FliS; cl00654 1208660007025 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1208660007026 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1208660007027 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1208660007028 FlaG protein; Region: FlaG; pfam03646 1208660007029 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1208660007030 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208660007031 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208660007032 Sporulation related domain; Region: SPOR; pfam05036 1208660007033 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1208660007034 Colicin V production protein; Region: Colicin_V; pfam02674 1208660007035 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1208660007036 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 1208660007037 active site 1208660007038 tetramer interface [polypeptide binding]; other site 1208660007039 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1208660007040 active site 1208660007041 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1208660007042 MarC family integral membrane protein; Region: MarC; cl00919 1208660007043 PII uridylyl-transferase; Provisional; Region: PRK03059 1208660007044 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1208660007045 metal binding triad; other site 1208660007046 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1208660007047 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1208660007048 Zn2+ binding site [ion binding]; other site 1208660007049 Mg2+ binding site [ion binding]; other site 1208660007050 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 1208660007051 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 1208660007052 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 1208660007053 active site 1208660007054 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 1208660007055 rRNA interaction site [nucleotide binding]; other site 1208660007056 S8 interaction site; other site 1208660007057 putative laminin-1 binding site; other site 1208660007058 elongation factor Ts; Provisional; Region: tsf; PRK09377 1208660007059 UBA/TS-N domain; Region: UBA; pfam00627 1208660007060 Elongation factor TS; Region: EF_TS; pfam00889 1208660007061 Elongation factor TS; Region: EF_TS; pfam00889 1208660007062 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 1208660007063 putative nucleotide binding site [chemical binding]; other site 1208660007064 uridine monophosphate binding site [chemical binding]; other site 1208660007065 homohexameric interface [polypeptide binding]; other site 1208660007066 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1208660007067 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 1208660007068 hinge region; other site 1208660007069 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14836 1208660007070 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1208660007071 catalytic residue [active] 1208660007072 putative FPP diphosphate binding site; other site 1208660007073 putative FPP binding hydrophobic cleft; other site 1208660007074 dimer interface [polypeptide binding]; other site 1208660007075 putative IPP diphosphate binding site; other site 1208660007076 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1208660007077 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1208660007078 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1208660007079 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1208660007080 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1208660007081 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1208660007082 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1208660007083 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 1208660007084 active site 1208660007085 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 1208660007086 putative substrate binding region [chemical binding]; other site 1208660007087 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1208660007088 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1208660007089 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1208660007090 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1208660007091 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1208660007092 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1208660007093 Surface antigen; Region: Bac_surface_Ag; pfam01103 1208660007094 periplasmic chaperone; Provisional; Region: PRK10780 1208660007095 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1208660007096 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1208660007097 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 1208660007098 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 1208660007099 trimer interface [polypeptide binding]; other site 1208660007100 active site 1208660007101 UDP-GlcNAc binding site [chemical binding]; other site 1208660007102 lipid binding site [chemical binding]; lipid-binding site 1208660007103 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 1208660007104 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1208660007105 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 1208660007106 active site 1208660007107 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1208660007108 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1208660007109 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1208660007110 RNA/DNA hybrid binding site [nucleotide binding]; other site 1208660007111 active site 1208660007112 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1208660007113 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1208660007114 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1208660007115 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1208660007116 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1208660007117 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1208660007118 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1208660007119 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1208660007120 catalytic triad [active] 1208660007121 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1208660007122 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 1208660007123 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208660007124 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208660007125 metal binding site [ion binding]; metal-binding site 1208660007126 active site 1208660007127 I-site; other site 1208660007128 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 1208660007129 SmpB-tmRNA interface; other site 1208660007130 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1208660007131 putative coenzyme Q binding site [chemical binding]; other site 1208660007132 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 1208660007133 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208660007134 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208660007135 active site 1208660007136 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1208660007137 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 1208660007138 substrate binding site [chemical binding]; other site 1208660007139 oxyanion hole (OAH) forming residues; other site 1208660007140 trimer interface [polypeptide binding]; other site 1208660007141 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1208660007142 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1208660007143 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1208660007144 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 1208660007145 CoenzymeA binding site [chemical binding]; other site 1208660007146 subunit interaction site [polypeptide binding]; other site 1208660007147 PHB binding site; other site 1208660007148 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 1208660007149 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1208660007150 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1208660007151 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1208660007152 YceG-like family; Region: YceG; pfam02618 1208660007153 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1208660007154 dimerization interface [polypeptide binding]; other site 1208660007155 thymidylate kinase; Validated; Region: tmk; PRK00698 1208660007156 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 1208660007157 TMP-binding site; other site 1208660007158 ATP-binding site [chemical binding]; other site 1208660007159 DNA polymerase III subunit delta'; Validated; Region: PRK06964 1208660007160 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1208660007161 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1208660007162 active site 1208660007163 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 1208660007164 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 1208660007165 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1208660007166 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660007167 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 1208660007168 putative DNA binding site [nucleotide binding]; other site 1208660007169 putative Zn2+ binding site [ion binding]; other site 1208660007170 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660007171 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 1208660007172 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1208660007173 substrate binding pocket [chemical binding]; other site 1208660007174 membrane-bound complex binding site; other site 1208660007175 hinge residues; other site 1208660007176 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660007177 dimer interface [polypeptide binding]; other site 1208660007178 conserved gate region; other site 1208660007179 putative PBP binding loops; other site 1208660007180 ABC-ATPase subunit interface; other site 1208660007181 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208660007182 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208660007183 Walker A/P-loop; other site 1208660007184 ATP binding site [chemical binding]; other site 1208660007185 Q-loop/lid; other site 1208660007186 ABC transporter signature motif; other site 1208660007187 Walker B; other site 1208660007188 D-loop; other site 1208660007189 H-loop/switch region; other site 1208660007190 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 1208660007191 putative active site [active] 1208660007192 putative metal binding site [ion binding]; other site 1208660007193 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1208660007194 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1208660007195 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1208660007196 NAD(P) binding site [chemical binding]; other site 1208660007198 Protein of unknown function, DUF488; Region: DUF488; cl01246 1208660007199 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1208660007200 Cytochrome c; Region: Cytochrom_C; pfam00034 1208660007203 Transmembrane secretion effector; Region: MFS_3; pfam05977 1208660007204 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 1208660007205 putative substrate translocation pore; other site 1208660007208 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1208660007209 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1208660007210 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 1208660007211 active site 1208660007212 phosphorylation site [posttranslational modification] 1208660007213 intermolecular recognition site; other site 1208660007214 dimerization interface [polypeptide binding]; other site 1208660007215 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 1208660007216 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 1208660007219 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1208660007220 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily; Region: M14_ASTE_ASPA_like; cd06230 1208660007221 active site 1208660007222 Zn binding site [ion binding]; other site 1208660007223 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1208660007225 Amino acid synthesis; Region: AA_synth; pfam06684 1208660007226 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660007227 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1208660007228 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1208660007231 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660007232 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660007233 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660007234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660007235 NAD(P) binding site [chemical binding]; other site 1208660007236 active site 1208660007240 DctM-like transporters; Region: DctM; pfam06808 1208660007241 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208660007242 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208660007243 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660007244 DNA-binding site [nucleotide binding]; DNA binding site 1208660007245 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1208660007248 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1208660007249 agmatinase; Region: agmatinase; TIGR01230 1208660007250 oligomer interface [polypeptide binding]; other site 1208660007251 putative active site [active] 1208660007252 Mn binding site [ion binding]; other site 1208660007253 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660007254 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1208660007255 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660007256 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 1208660007257 dimerization interface [polypeptide binding]; other site 1208660007258 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 1208660007259 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1208660007260 ligand binding site [chemical binding]; other site 1208660007261 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660007262 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 1208660007263 TM-ABC transporter signature motif; other site 1208660007266 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1208660007267 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208660007268 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208660007269 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660007270 DNA-binding site [nucleotide binding]; DNA binding site 1208660007271 FCD domain; Region: FCD; pfam07729 1208660007272 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1208660007273 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1208660007274 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1208660007275 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1208660007276 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 1208660007277 non-specific DNA binding site [nucleotide binding]; other site 1208660007278 salt bridge; other site 1208660007279 sequence-specific DNA binding site [nucleotide binding]; other site 1208660007280 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 1208660007281 CoenzymeA binding site [chemical binding]; other site 1208660007282 subunit interaction site [polypeptide binding]; other site 1208660007283 PHB binding site; other site 1208660007284 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1208660007285 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208660007286 classical (c) SDRs; Region: SDR_c; cd05233 1208660007287 NAD(P) binding site [chemical binding]; other site 1208660007288 active site 1208660007289 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660007290 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 1208660007291 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1208660007292 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1208660007295 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 1208660007297 Histidine kinase; Region: HisKA_3; pfam07730 1208660007298 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 1208660007299 ATP binding site [chemical binding]; other site 1208660007300 Mg2+ binding site [ion binding]; other site 1208660007301 G-X-G motif; other site 1208660007302 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1208660007303 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 1208660007304 active site 1208660007305 phosphorylation site [posttranslational modification] 1208660007306 intermolecular recognition site; other site 1208660007307 dimerization interface [polypeptide binding]; other site 1208660007308 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 1208660007309 DNA binding residues [nucleotide binding] 1208660007310 dimerization interface [polypeptide binding]; other site 1208660007312 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 1208660007313 non-specific DNA binding site [nucleotide binding]; other site 1208660007314 salt bridge; other site 1208660007315 sequence-specific DNA binding site [nucleotide binding]; other site 1208660007316 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 1208660007317 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 1208660007318 glutathionine S-transferase; Provisional; Region: PRK10542 1208660007319 C-terminal domain interface [polypeptide binding]; other site 1208660007320 GSH binding site (G-site) [chemical binding]; other site 1208660007321 dimer interface [polypeptide binding]; other site 1208660007322 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1208660007323 dimer interface [polypeptide binding]; other site 1208660007324 N-terminal domain interface [polypeptide binding]; other site 1208660007325 substrate binding pocket (H-site) [chemical binding]; other site 1208660007327 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660007329 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 1208660007330 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660007331 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 1208660007332 putative DNA binding site [nucleotide binding]; other site 1208660007333 putative Zn2+ binding site [ion binding]; other site 1208660007334 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660007335 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660007336 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660007337 lipid-transfer protein; Provisional; Region: PRK08256 1208660007338 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 1208660007339 active site 1208660007340 DUF35 OB-fold domain; Region: DUF35; pfam01796 1208660007343 Thiolase, N-terminal domain; Region: Thiolase_N; pfam00108 1208660007344 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 1208660007345 dimer interface [polypeptide binding]; other site 1208660007347 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 1208660007348 active site 1208660007349 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 1208660007350 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1208660007351 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1208660007352 salicylate hydroxylase; Provisional; Region: PRK08163 1208660007353 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1208660007354 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660007355 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660007356 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660007357 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 1208660007358 dimerization interface [polypeptide binding]; other site 1208660007359 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 1208660007360 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1208660007361 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 1208660007362 ArsC family; Region: ArsC; pfam03960 1208660007363 catalytic residues [active] 1208660007364 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208660007365 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 1208660007366 putative DNA binding site [nucleotide binding]; other site 1208660007367 putative Zn2+ binding site [ion binding]; other site 1208660007370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660007371 NAD(P) binding site [chemical binding]; other site 1208660007372 active site 1208660007373 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660007374 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660007375 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 1208660007376 dimerization interface [polypeptide binding]; other site 1208660007378 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 1208660007379 PAS fold; Region: PAS_3; pfam08447 1208660007380 putative active site [active] 1208660007381 heme pocket [chemical binding]; other site 1208660007382 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208660007383 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208660007384 metal binding site [ion binding]; metal-binding site 1208660007385 active site 1208660007386 I-site; other site 1208660007387 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 1208660007388 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1208660007389 active site 1208660007390 dimer interface [polypeptide binding]; other site 1208660007391 metal binding site [ion binding]; metal-binding site 1208660007393 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 1208660007394 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1208660007396 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208660007397 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208660007398 Walker A/P-loop; other site 1208660007399 ATP binding site [chemical binding]; other site 1208660007400 Q-loop/lid; other site 1208660007401 ABC transporter signature motif; other site 1208660007402 Walker B; other site 1208660007403 D-loop; other site 1208660007404 H-loop/switch region; other site 1208660007405 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660007406 dimer interface [polypeptide binding]; other site 1208660007407 conserved gate region; other site 1208660007408 putative PBP binding loops; other site 1208660007409 ABC-ATPase subunit interface; other site 1208660007410 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1208660007411 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 1208660007412 substrate binding pocket [chemical binding]; other site 1208660007413 membrane-bound complex binding site; other site 1208660007414 hinge residues; other site 1208660007415 periplasmic nitrate reductase, NapE protein; Region: nitrate_rd_NapE; TIGR02973 1208660007416 NapD protein; Region: NapD; pfam03927 1208660007417 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1208660007418 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 1208660007419 [4Fe-4S] binding site [ion binding]; other site 1208660007420 molybdopterin cofactor binding site; other site 1208660007421 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 1208660007422 molybdopterin cofactor binding site; other site 1208660007423 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 1208660007424 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1208660007425 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 1208660007426 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660007427 Walker A/P-loop; other site 1208660007428 ATP binding site [chemical binding]; other site 1208660007429 ABC transporter; Region: ABC_tran; pfam00005 1208660007430 Q-loop/lid; other site 1208660007431 ABC transporter signature motif; other site 1208660007432 Walker B; other site 1208660007433 D-loop; other site 1208660007434 CcmB protein; Region: CcmB; cl17444 1208660007435 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1208660007436 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1208660007437 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 1208660007438 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1208660007439 catalytic residues [active] 1208660007440 central insert; other site 1208660007441 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1208660007442 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 1208660007443 TPR motif; other site 1208660007444 binding surface 1208660007445 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 1208660007446 dimer interface [polypeptide binding]; other site 1208660007447 putative inhibitory loop; other site 1208660007448 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 1208660007449 homotrimer interaction site [polypeptide binding]; other site 1208660007450 putative active site [active] 1208660007451 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1208660007452 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1208660007453 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1208660007454 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1208660007455 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 1208660007456 putative active site pocket [active] 1208660007457 metal binding site [ion binding]; metal-binding site 1208660007458 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660007459 isopropylmalate isomerase large subunit; Provisional; Region: PRK12466 1208660007460 substrate binding site [chemical binding]; other site 1208660007461 ligand binding site [chemical binding]; other site 1208660007462 3-isopropylmalate dehydratase, small subunit; Region: leuD; TIGR00171 1208660007463 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 1208660007464 substrate binding site [chemical binding]; other site 1208660007465 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1208660007466 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1208660007467 DNA binding site [nucleotide binding] 1208660007468 domain linker motif; other site 1208660007469 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 1208660007470 dimerization interface [polypeptide binding]; other site 1208660007471 ligand binding site [chemical binding]; other site 1208660007473 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660007474 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660007476 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660007477 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1208660007478 CoA binding domain; Region: CoA_binding_2; pfam13380 1208660007479 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1208660007480 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1208660007481 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208660007482 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660007483 DNA-binding site [nucleotide binding]; DNA binding site 1208660007484 FCD domain; Region: FCD; pfam07729 1208660007486 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1208660007487 Predicted flavoprotein [General function prediction only]; Region: COG0431 1208660007490 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660007491 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660007492 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1208660007493 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1208660007494 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1208660007495 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1208660007496 glycogen/starch synthase, ADP-glucose type; Region: glgA; TIGR02095 1208660007497 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 1208660007498 ADP-binding pocket [chemical binding]; other site 1208660007499 homodimer interface [polypeptide binding]; other site 1208660007501 trehalose synthase; Region: treS_nterm; TIGR02456 1208660007502 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1208660007503 active site 1208660007504 catalytic site [active] 1208660007505 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 1208660007506 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1208660007509 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 1208660007510 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 1208660007511 active site 1208660007512 Zn binding site [ion binding]; other site 1208660007513 DoxX; Region: DoxX; pfam07681 1208660007516 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 1208660007517 ArsC family; Region: ArsC; pfam03960 1208660007518 catalytic residues [active] 1208660007519 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660007520 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660007521 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 1208660007522 TPR repeat; Region: TPR_11; pfam13414 1208660007523 binding surface 1208660007524 TPR motif; other site 1208660007525 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 1208660007526 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 1208660007527 catalytic residues [active] 1208660007528 dimer interface [polypeptide binding]; other site 1208660007529 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1208660007530 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 1208660007531 C-terminal domain interface [polypeptide binding]; other site 1208660007532 GSH binding site (G-site) [chemical binding]; other site 1208660007533 dimer interface [polypeptide binding]; other site 1208660007534 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1208660007535 N-terminal domain interface [polypeptide binding]; other site 1208660007536 putative dimer interface [polypeptide binding]; other site 1208660007537 active site 1208660007538 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1208660007539 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208660007540 Coenzyme A binding pocket [chemical binding]; other site 1208660007541 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1208660007542 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1208660007543 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1208660007544 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1208660007545 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 1208660007546 phosphate binding site [ion binding]; other site 1208660007547 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1208660007548 RES domain; Region: RES; pfam08808 1208660007549 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 1208660007550 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 1208660007551 Protein of unknown function (DUF423); Region: DUF423; pfam04241 1208660007552 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208660007553 EamA-like transporter family; Region: EamA; pfam00892 1208660007554 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 1208660007555 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1208660007556 C-terminal domain interface [polypeptide binding]; other site 1208660007557 GSH binding site (G-site) [chemical binding]; other site 1208660007558 dimer interface [polypeptide binding]; other site 1208660007559 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1208660007560 dimer interface [polypeptide binding]; other site 1208660007561 N-terminal domain interface [polypeptide binding]; other site 1208660007562 substrate binding pocket (H-site) [chemical binding]; other site 1208660007563 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1208660007564 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1208660007565 glutathionine S-transferase; Provisional; Region: PRK10542 1208660007566 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 1208660007567 C-terminal domain interface [polypeptide binding]; other site 1208660007568 GSH binding site (G-site) [chemical binding]; other site 1208660007569 dimer interface [polypeptide binding]; other site 1208660007570 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1208660007571 dimer interface [polypeptide binding]; other site 1208660007572 N-terminal domain interface [polypeptide binding]; other site 1208660007573 substrate binding pocket (H-site) [chemical binding]; other site 1208660007574 aspartate racemase; Region: asp_race; TIGR00035 1208660007575 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1208660007576 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208660007577 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660007578 Walker A/P-loop; other site 1208660007579 ATP binding site [chemical binding]; other site 1208660007580 Q-loop/lid; other site 1208660007581 ABC transporter signature motif; other site 1208660007582 Walker B; other site 1208660007583 D-loop; other site 1208660007584 H-loop/switch region; other site 1208660007585 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1208660007586 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208660007587 Walker A/P-loop; other site 1208660007588 ATP binding site [chemical binding]; other site 1208660007589 Q-loop/lid; other site 1208660007590 ABC transporter signature motif; other site 1208660007591 Walker B; other site 1208660007592 D-loop; other site 1208660007593 H-loop/switch region; other site 1208660007594 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1208660007595 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 1208660007596 TM-ABC transporter signature motif; other site 1208660007597 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660007598 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 1208660007599 TM-ABC transporter signature motif; other site 1208660007600 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208660007601 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 1208660007602 dimerization interface [polypeptide binding]; other site 1208660007603 ligand binding site [chemical binding]; other site 1208660007604 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 1208660007605 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1208660007606 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1208660007607 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1208660007608 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1208660007609 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660007610 dimer interface [polypeptide binding]; other site 1208660007611 conserved gate region; other site 1208660007612 putative PBP binding loops; other site 1208660007613 ABC-ATPase subunit interface; other site 1208660007615 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1208660007616 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1208660007617 Walker A/P-loop; other site 1208660007618 ATP binding site [chemical binding]; other site 1208660007619 Q-loop/lid; other site 1208660007620 ABC transporter signature motif; other site 1208660007621 Walker B; other site 1208660007622 D-loop; other site 1208660007623 H-loop/switch region; other site 1208660007624 TOBE domain; Region: TOBE_2; pfam08402 1208660007625 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208660007626 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 1208660007627 dimerization interface [polypeptide binding]; other site 1208660007628 ligand binding site [chemical binding]; other site 1208660007629 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1208660007630 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208660007633 Sulfatase; Region: Sulfatase; cl17466 1208660007635 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1208660007636 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1208660007638 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 1208660007639 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 1208660007640 NAD binding site [chemical binding]; other site 1208660007641 substrate binding site [chemical binding]; other site 1208660007642 homodimer interface [polypeptide binding]; other site 1208660007643 active site 1208660007644 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 1208660007645 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1208660007646 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1208660007647 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1208660007648 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1208660007649 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1208660007650 Vi polysaccharide biosynthesis protein TviD; Provisional; Region: PRK15180 1208660007651 Vi polysaccharide biosynthesis protein TviE; Provisional; Region: PRK15179 1208660007652 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 1208660007653 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 1208660007655 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1208660007656 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1208660007657 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1208660007658 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 1208660007659 active site 1208660007662 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660007663 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660007664 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1208660007665 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1208660007666 dimerization interface [polypeptide binding]; other site 1208660007667 DPS ferroxidase diiron center [ion binding]; other site 1208660007668 ion pore; other site 1208660007669 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1208660007670 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1208660007671 tetrameric interface [polypeptide binding]; other site 1208660007672 NAD binding site [chemical binding]; other site 1208660007673 catalytic residues [active] 1208660007674 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660007675 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660007676 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 1208660007677 putative effector binding pocket; other site 1208660007678 dimerization interface [polypeptide binding]; other site 1208660007679 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1208660007680 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660007681 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 1208660007682 dimerization interface [polypeptide binding]; other site 1208660007683 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1208660007684 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 1208660007685 generic binding surface II; other site 1208660007686 ssDNA binding site; other site 1208660007687 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 1208660007688 ATP binding site [chemical binding]; other site 1208660007689 putative Mg++ binding site [ion binding]; other site 1208660007690 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 1208660007691 nucleotide binding region [chemical binding]; other site 1208660007692 ATP-binding site [chemical binding]; other site 1208660007693 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 1208660007694 homotrimer interaction site [polypeptide binding]; other site 1208660007695 putative active site [active] 1208660007696 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 1208660007697 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208660007698 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208660007699 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 1208660007700 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1208660007701 active site 1208660007702 catalytic tetrad [active] 1208660007703 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1208660007704 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 1208660007705 putative substrate translocation pore; other site 1208660007706 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660007707 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660007708 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 1208660007709 putative effector binding pocket; other site 1208660007710 dimerization interface [polypeptide binding]; other site 1208660007711 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1208660007712 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 1208660007713 FAD binding pocket [chemical binding]; other site 1208660007714 FAD binding motif [chemical binding]; other site 1208660007715 phosphate binding motif [ion binding]; other site 1208660007716 beta-alpha-beta structure motif; other site 1208660007717 NAD binding pocket [chemical binding]; other site 1208660007718 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1208660007719 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1208660007720 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1208660007721 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660007722 dimer interface [polypeptide binding]; other site 1208660007723 conserved gate region; other site 1208660007724 putative PBP binding loops; other site 1208660007725 ABC-ATPase subunit interface; other site 1208660007726 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660007727 dimer interface [polypeptide binding]; other site 1208660007728 conserved gate region; other site 1208660007729 ABC-ATPase subunit interface; other site 1208660007730 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1208660007731 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1208660007732 Walker A/P-loop; other site 1208660007733 ATP binding site [chemical binding]; other site 1208660007734 Q-loop/lid; other site 1208660007735 ABC transporter signature motif; other site 1208660007736 Walker B; other site 1208660007737 D-loop; other site 1208660007738 H-loop/switch region; other site 1208660007739 Pirin-related protein [General function prediction only]; Region: COG1741 1208660007740 Pirin; Region: Pirin; pfam02678 1208660007741 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1208660007742 Pirin-related protein [General function prediction only]; Region: COG1741 1208660007743 Pirin; Region: Pirin; pfam02678 1208660007745 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1208660007746 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 1208660007747 active site 1208660007748 phosphorylation site [posttranslational modification] 1208660007749 intermolecular recognition site; other site 1208660007750 dimerization interface [polypeptide binding]; other site 1208660007751 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 1208660007752 Walker A motif; other site 1208660007753 ATP binding site [chemical binding]; other site 1208660007754 Walker B motif; other site 1208660007755 arginine finger; other site 1208660007756 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1208660007757 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1208660007758 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 1208660007759 putative active site [active] 1208660007760 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 1208660007761 dimer interface [polypeptide binding]; other site 1208660007762 phosphorylation site [posttranslational modification] 1208660007763 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 1208660007764 ATP binding site [chemical binding]; other site 1208660007765 Mg2+ binding site [ion binding]; other site 1208660007766 G-X-G motif; other site 1208660007767 glutamine synthetase; Provisional; Region: glnA; PRK09469 1208660007768 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1208660007769 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1208660007770 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 1208660007771 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 1208660007772 FeS/SAM binding site; other site 1208660007773 HemN C-terminal domain; Region: HemN_C; pfam06969 1208660007774 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 1208660007775 active site 1208660007776 dimerization interface [polypeptide binding]; other site 1208660007777 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 1208660007778 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 1208660007779 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208660007780 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208660007781 metal binding site [ion binding]; metal-binding site 1208660007782 active site 1208660007783 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 1208660007784 dimerization interface [polypeptide binding]; other site 1208660007785 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1208660007786 dimer interface [polypeptide binding]; other site 1208660007787 putative CheW interface [polypeptide binding]; other site 1208660007788 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660007789 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660007790 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 1208660007791 putative dimerization interface [polypeptide binding]; other site 1208660007792 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1208660007793 ribonuclease PH; Reviewed; Region: rph; PRK00173 1208660007794 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1208660007795 hexamer interface [polypeptide binding]; other site 1208660007796 active site 1208660007797 hypothetical protein; Provisional; Region: PRK11820 1208660007798 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1208660007799 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1208660007800 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 1208660007801 non-specific DNA binding site [nucleotide binding]; other site 1208660007802 salt bridge; other site 1208660007803 sequence-specific DNA binding site [nucleotide binding]; other site 1208660007804 AMP nucleosidase; Provisional; Region: PRK08292 1208660007805 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1208660007806 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1208660007807 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1208660007808 NlpC/P60 family; Region: NLPC_P60; pfam00877 1208660007809 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1208660007810 classical (c) SDRs; Region: SDR_c; cd05233 1208660007811 NAD(P) binding site [chemical binding]; other site 1208660007812 active site 1208660007813 Cytochrome c; Region: Cytochrom_C; cl11414 1208660007814 Cytochrome c; Region: Cytochrom_C; cl11414 1208660007815 Cytochrome c [Energy production and conversion]; Region: COG3258 1208660007816 Cytochrome c; Region: Cytochrom_C; pfam00034 1208660007817 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1208660007818 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 1208660007819 catalytic site [active] 1208660007820 G-X2-G-X-G-K; other site 1208660007821 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1208660007822 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1208660007823 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1208660007824 Zn2+ binding site [ion binding]; other site 1208660007825 Mg2+ binding site [ion binding]; other site 1208660007826 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1208660007827 synthetase active site [active] 1208660007828 NTP binding site [chemical binding]; other site 1208660007829 metal binding site [ion binding]; metal-binding site 1208660007830 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 1208660007831 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1208660007832 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 1208660007833 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208660007834 Walker A/P-loop; other site 1208660007835 ATP binding site [chemical binding]; other site 1208660007836 Q-loop/lid; other site 1208660007837 ABC transporter signature motif; other site 1208660007838 Walker B; other site 1208660007839 D-loop; other site 1208660007840 H-loop/switch region; other site 1208660007841 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1208660007842 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660007843 dimer interface [polypeptide binding]; other site 1208660007844 conserved gate region; other site 1208660007845 putative PBP binding loops; other site 1208660007846 ABC-ATPase subunit interface; other site 1208660007847 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 1208660007848 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 1208660007849 substrate binding pocket [chemical binding]; other site 1208660007850 membrane-bound complex binding site; other site 1208660007851 hinge residues; other site 1208660007852 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1208660007853 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 1208660007854 5-oxoprolinase; Region: PLN02666 1208660007855 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1208660007856 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1208660007857 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1208660007858 MarR family; Region: MarR_2; cl17246 1208660007859 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660007860 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660007861 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 1208660007862 dimerization interface [polypeptide binding]; other site 1208660007863 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208660007864 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208660007865 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208660007866 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208660007867 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208660007868 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208660007869 DctM-like transporters; Region: DctM; pfam06808 1208660007870 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 1208660007871 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1208660007872 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1208660007873 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1208660007874 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1208660007875 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1208660007876 PapC N-terminal domain; Region: PapC_N; pfam13954 1208660007877 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1208660007878 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1208660007879 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1208660007880 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1208660007881 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1208660007882 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1208660007883 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1208660007884 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1208660007885 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1208660007886 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 1208660007887 active site 1208660007888 phosphorylation site [posttranslational modification] 1208660007889 intermolecular recognition site; other site 1208660007890 dimerization interface [polypeptide binding]; other site 1208660007891 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 1208660007892 DNA binding residues [nucleotide binding] 1208660007893 dimerization interface [polypeptide binding]; other site 1208660007894 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 1208660007895 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 1208660007896 substrate binding pocket [chemical binding]; other site 1208660007897 membrane-bound complex binding site; other site 1208660007898 hinge residues; other site 1208660007899 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 1208660007900 substrate binding pocket [chemical binding]; other site 1208660007901 membrane-bound complex binding site; other site 1208660007902 hinge residues; other site 1208660007903 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 1208660007904 putative active site [active] 1208660007905 heme pocket [chemical binding]; other site 1208660007906 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 1208660007907 dimer interface [polypeptide binding]; other site 1208660007908 phosphorylation site [posttranslational modification] 1208660007909 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 1208660007910 ATP binding site [chemical binding]; other site 1208660007911 Mg2+ binding site [ion binding]; other site 1208660007912 G-X-G motif; other site 1208660007913 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 1208660007914 active site 1208660007915 phosphorylation site [posttranslational modification] 1208660007916 intermolecular recognition site; other site 1208660007917 dimerization interface [polypeptide binding]; other site 1208660007918 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 1208660007919 putative binding surface; other site 1208660007920 active site 1208660007921 EAL domain; Region: EAL; pfam00563 1208660007922 hypothetical protein; Provisional; Region: PRK05463 1208660007923 amidase; Provisional; Region: PRK07056 1208660007924 Amidase; Region: Amidase; cl11426 1208660007925 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 1208660007926 DctM-like transporters; Region: DctM; pfam06808 1208660007927 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208660007928 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1208660007929 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208660007930 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660007931 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660007932 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660007933 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660007934 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 1208660007935 dimerization interface [polypeptide binding]; other site 1208660007937 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1208660007938 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1208660007939 Walker A/P-loop; other site 1208660007940 ATP binding site [chemical binding]; other site 1208660007941 Q-loop/lid; other site 1208660007942 ABC transporter signature motif; other site 1208660007943 Walker B; other site 1208660007944 D-loop; other site 1208660007945 H-loop/switch region; other site 1208660007946 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 1208660007947 active site 1208660007948 catalytic triad [active] 1208660007949 oxyanion hole [active] 1208660007950 switch loop; other site 1208660007951 SurA N-terminal domain; Region: SurA_N_3; cl07813 1208660007952 periplasmic folding chaperone; Provisional; Region: PRK10788 1208660007953 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1208660007954 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 1208660007955 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 1208660007956 putative active site [active] 1208660007957 catalytic site [active] 1208660007958 putative metal binding site [ion binding]; other site 1208660007959 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1208660007960 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 1208660007961 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1208660007962 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208660007963 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1208660007964 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 1208660007965 catalytic triad [active] 1208660007966 dimer interface [polypeptide binding]; other site 1208660007967 Glutaredoxin-family domain; Region: GlrX-dom; TIGR02190 1208660007968 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 1208660007969 metal-binding site [ion binding] 1208660007970 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1208660007971 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1208660007972 DNA binding residues [nucleotide binding] 1208660007973 dimer interface [polypeptide binding]; other site 1208660007974 copper binding site [ion binding]; other site 1208660007975 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1208660007976 TRAM domain; Region: TRAM; cl01282 1208660007977 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 1208660007978 S-adenosylmethionine binding site [chemical binding]; other site 1208660007979 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 1208660007980 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 1208660007981 active site 1208660007982 catalytic site [active] 1208660007983 substrate binding site [chemical binding]; other site 1208660007984 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 1208660007985 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1208660007986 Peptidase family M23; Region: Peptidase_M23; pfam01551 1208660007987 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1208660007988 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 1208660007989 S-adenosylmethionine binding site [chemical binding]; other site 1208660007990 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1208660007991 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1208660007992 UGMP family protein; Validated; Region: PRK09604 1208660007993 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1208660007994 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1208660007995 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1208660007996 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1208660007997 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 1208660007998 catalytic residues [active] 1208660007999 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1208660008000 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1208660008001 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1208660008002 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1208660008003 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208660008004 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660008005 dimer interface [polypeptide binding]; other site 1208660008006 conserved gate region; other site 1208660008007 putative PBP binding loops; other site 1208660008008 ABC-ATPase subunit interface; other site 1208660008009 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1208660008010 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 1208660008011 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208660008012 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208660008013 Walker A/P-loop; other site 1208660008014 ATP binding site [chemical binding]; other site 1208660008015 Q-loop/lid; other site 1208660008016 ABC transporter signature motif; other site 1208660008017 Walker B; other site 1208660008018 D-loop; other site 1208660008019 H-loop/switch region; other site 1208660008020 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1208660008021 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208660008022 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208660008023 ABC transporter; Region: ABC_tran_2; pfam12848 1208660008024 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1208660008026 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1208660008028 enoyl-CoA hydratase; Provisional; Region: PRK05995 1208660008029 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 1208660008030 substrate binding site [chemical binding]; other site 1208660008031 oxyanion hole (OAH) forming residues; other site 1208660008032 trimer interface [polypeptide binding]; other site 1208660008033 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1208660008034 dimer interface [polypeptide binding]; other site 1208660008035 catalytic triad [active] 1208660008036 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 1208660008037 nucleoside/Zn binding site; other site 1208660008038 dimer interface [polypeptide binding]; other site 1208660008039 catalytic motif [active] 1208660008040 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1208660008041 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 1208660008042 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1208660008043 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1208660008044 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1208660008045 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1208660008046 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1208660008047 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1208660008048 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1208660008049 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1208660008050 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1208660008051 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660008053 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1208660008054 active site 1208660008055 metal binding site [ion binding]; metal-binding site 1208660008056 DNA binding site [nucleotide binding] 1208660008057 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1208660008058 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1208660008059 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208660008060 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1208660008061 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1208660008062 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 1208660008063 putative DNA binding site [nucleotide binding]; other site 1208660008064 putative Zn2+ binding site [ion binding]; other site 1208660008065 AsnC family; Region: AsnC_trans_reg; pfam01037 1208660008066 Protein of unknown function (DUF502); Region: DUF502; pfam04367 1208660008067 transglutaminase; Provisional; Region: tgl; PRK03187 1208660008068 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1208660008069 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 1208660008070 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1208660008071 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660008072 dimer interface [polypeptide binding]; other site 1208660008073 conserved gate region; other site 1208660008074 putative PBP binding loops; other site 1208660008075 ABC-ATPase subunit interface; other site 1208660008076 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1208660008077 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660008078 putative PBP binding loops; other site 1208660008079 dimer interface [polypeptide binding]; other site 1208660008080 ABC-ATPase subunit interface; other site 1208660008081 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1208660008082 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1208660008083 Walker A/P-loop; other site 1208660008084 ATP binding site [chemical binding]; other site 1208660008085 Q-loop/lid; other site 1208660008086 ABC transporter signature motif; other site 1208660008087 Walker B; other site 1208660008088 D-loop; other site 1208660008089 H-loop/switch region; other site 1208660008090 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1208660008091 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1208660008092 Walker A/P-loop; other site 1208660008093 ATP binding site [chemical binding]; other site 1208660008094 Q-loop/lid; other site 1208660008095 ABC transporter signature motif; other site 1208660008096 Walker B; other site 1208660008097 D-loop; other site 1208660008098 H-loop/switch region; other site 1208660008099 TOBE domain; Region: TOBE_2; pfam08402 1208660008100 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1208660008101 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1208660008102 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1208660008103 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1208660008104 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660008105 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660008106 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660008107 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 1208660008108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660008109 NAD(P) binding site [chemical binding]; other site 1208660008110 active site 1208660008111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208660008112 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 1208660008113 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1208660008114 L-aspartate oxidase; Provisional; Region: PRK06175 1208660008115 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1208660008116 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1208660008117 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1208660008118 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1208660008119 potential catalytic triad [active] 1208660008120 conserved cys residue [active] 1208660008121 NRDE protein; Region: NRDE; cl01315 1208660008122 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1208660008123 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660008124 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1208660008125 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1208660008126 inhibitor site; inhibition site 1208660008127 active site 1208660008128 dimer interface [polypeptide binding]; other site 1208660008129 catalytic residue [active] 1208660008130 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660008131 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208660008132 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660008133 MAPEG family; Region: MAPEG; cl09190 1208660008134 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 1208660008135 hypothetical protein; Provisional; Region: PRK09256 1208660008136 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1208660008137 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 1208660008138 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1208660008139 active site 1208660008140 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208660008141 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208660008142 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 1208660008143 intersubunit interface [polypeptide binding]; other site 1208660008144 active site 1208660008145 Zn2+ binding site [ion binding]; other site 1208660008146 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 1208660008147 non-specific DNA binding site [nucleotide binding]; other site 1208660008148 salt bridge; other site 1208660008149 sequence-specific DNA binding site [nucleotide binding]; other site 1208660008150 Cupin domain; Region: Cupin_2; pfam07883 1208660008151 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1208660008152 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1208660008154 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1208660008155 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1208660008156 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1208660008157 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208660008158 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1208660008159 Predicted esterase [General function prediction only]; Region: COG0400 1208660008160 putative hydrolase; Provisional; Region: PRK11460 1208660008161 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1208660008163 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1208660008164 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1208660008165 putative active site [active] 1208660008166 putative PHP Thumb interface [polypeptide binding]; other site 1208660008167 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 1208660008168 generic binding surface II; other site 1208660008169 generic binding surface I; other site 1208660008170 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1208660008171 Predicted transcriptional regulator [Transcription]; Region: COG1959 1208660008172 Transcriptional regulator; Region: Rrf2; cl17282 1208660008173 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1208660008174 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 1208660008175 heme-binding site [chemical binding]; other site 1208660008176 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 1208660008177 FAD binding pocket [chemical binding]; other site 1208660008178 FAD binding motif [chemical binding]; other site 1208660008179 phosphate binding motif [ion binding]; other site 1208660008180 beta-alpha-beta structure motif; other site 1208660008181 NAD binding pocket [chemical binding]; other site 1208660008182 Heme binding pocket [chemical binding]; other site 1208660008183 Yqey-like protein; Region: YqeY; pfam09424 1208660008184 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1208660008185 active site 1208660008186 DNA polymerase IV; Validated; Region: PRK02406 1208660008187 DNA binding site [nucleotide binding] 1208660008188 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 1208660008189 CoenzymeA binding site [chemical binding]; other site 1208660008190 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1208660008191 subunit interaction site [polypeptide binding]; other site 1208660008192 PHB binding site; other site 1208660008193 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1208660008194 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1208660008195 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1208660008196 Transglycosylase; Region: Transgly; pfam00912 1208660008197 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1208660008198 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 1208660008199 active site 1208660008200 metal binding site [ion binding]; metal-binding site 1208660008201 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1208660008202 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1208660008203 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1208660008204 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1208660008205 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 1208660008206 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1208660008207 active site 1208660008208 catalytic tetrad [active] 1208660008211 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 1208660008212 iron-sulfur cluster [ion binding]; other site 1208660008213 [2Fe-2S] cluster binding site [ion binding]; other site 1208660008214 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 1208660008215 dimerization interface [polypeptide binding]; other site 1208660008216 putative active cleft [active] 1208660008219 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1208660008220 PAS domain S-box; Region: sensory_box; TIGR00229 1208660008221 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208660008222 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208660008223 metal binding site [ion binding]; metal-binding site 1208660008224 active site 1208660008225 I-site; other site 1208660008226 PAS domain; Region: PAS_9; pfam13426 1208660008227 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 1208660008228 putative active site [active] 1208660008229 heme pocket [chemical binding]; other site 1208660008230 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1208660008231 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1208660008232 dimer interface [polypeptide binding]; other site 1208660008233 putative CheW interface [polypeptide binding]; other site 1208660008234 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1208660008235 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1208660008236 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 1208660008237 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 1208660008238 dimer interface [polypeptide binding]; other site 1208660008239 putative tRNA-binding site [nucleotide binding]; other site 1208660008240 DoxX; Region: DoxX; pfam07681 1208660008241 lysine transporter; Provisional; Region: PRK10836 1208660008242 META domain; Region: META; pfam03724 1208660008243 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 1208660008244 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660008245 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1208660008246 active site 1208660008247 catalytic residues [active] 1208660008248 metal binding site [ion binding]; metal-binding site 1208660008250 Propionate catabolism activator; Region: PrpR_N; pfam06506 1208660008251 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1208660008252 PAS domain; Region: PAS; smart00091 1208660008253 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 1208660008254 Walker A motif; other site 1208660008255 ATP binding site [chemical binding]; other site 1208660008256 Walker B motif; other site 1208660008257 arginine finger; other site 1208660008258 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 1208660008259 DNA-binding interface [nucleotide binding]; DNA binding site 1208660008260 inner membrane protein; Provisional; Region: PRK10995 1208660008262 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208660008263 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208660008264 active site 1208660008265 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660008266 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660008267 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1208660008268 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208660008269 NAD(P) binding site [chemical binding]; other site 1208660008270 catalytic residues [active] 1208660008271 hypothetical protein; Provisional; Region: PRK07064 1208660008272 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208660008273 PYR/PP interface [polypeptide binding]; other site 1208660008274 dimer interface [polypeptide binding]; other site 1208660008275 TPP binding site [chemical binding]; other site 1208660008276 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208660008277 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 1208660008278 TPP-binding site [chemical binding]; other site 1208660008279 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660008280 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660008281 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660008282 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660008283 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 1208660008284 putative dimerization interface [polypeptide binding]; other site 1208660008285 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 1208660008286 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1208660008287 active site 1208660008288 DUF35 OB-fold domain; Region: DUF35; pfam01796 1208660008289 acetyl-CoA acetyltransferase; Validated; Region: PRK06157 1208660008290 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 1208660008291 active site 1208660008292 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1208660008293 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208660008294 acyl-activating enzyme (AAE) consensus motif; other site 1208660008295 AMP binding site [chemical binding]; other site 1208660008296 active site 1208660008297 CoA binding site [chemical binding]; other site 1208660008298 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1208660008299 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1208660008300 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660008301 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660008302 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1208660008303 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 1208660008304 catalytic loop [active] 1208660008305 iron binding site [ion binding]; other site 1208660008306 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208660008307 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660008308 NAD(P) binding site [chemical binding]; other site 1208660008309 active site 1208660008311 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 1208660008312 inter-subunit interface; other site 1208660008313 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1208660008314 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 1208660008315 iron-sulfur cluster [ion binding]; other site 1208660008316 [2Fe-2S] cluster binding site [ion binding]; other site 1208660008317 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 1208660008318 putative alpha subunit interface [polypeptide binding]; other site 1208660008319 putative active site [active] 1208660008320 putative substrate binding site [chemical binding]; other site 1208660008321 Fe binding site [ion binding]; other site 1208660008322 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208660008323 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 1208660008324 putative ligand binding site [chemical binding]; other site 1208660008325 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660008326 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 1208660008327 TM-ABC transporter signature motif; other site 1208660008328 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208660008329 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 1208660008330 TM-ABC transporter signature motif; other site 1208660008331 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208660008332 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208660008333 Walker A/P-loop; other site 1208660008334 ATP binding site [chemical binding]; other site 1208660008335 Q-loop/lid; other site 1208660008336 ABC transporter signature motif; other site 1208660008337 Walker B; other site 1208660008338 D-loop; other site 1208660008339 H-loop/switch region; other site 1208660008340 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208660008341 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660008342 Walker A/P-loop; other site 1208660008343 ATP binding site [chemical binding]; other site 1208660008344 Q-loop/lid; other site 1208660008345 ABC transporter signature motif; other site 1208660008346 Walker B; other site 1208660008347 D-loop; other site 1208660008348 H-loop/switch region; other site 1208660008349 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660008350 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660008352 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 1208660008353 homotrimer interaction site [polypeptide binding]; other site 1208660008354 putative active site [active] 1208660008356 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1208660008357 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 1208660008358 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 1208660008359 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 1208660008360 S-adenosylmethionine binding site [chemical binding]; other site 1208660008361 XamI restriction endonuclease; Region: RE_XamI; pfam09572 1208660008362 AAA ATPase domain; Region: AAA_15; pfam13175 1208660008363 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660008364 Walker A/P-loop; other site 1208660008365 ATP binding site [chemical binding]; other site 1208660008366 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 1208660008367 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 1208660008368 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1208660008369 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1208660008370 Type IV secretion system proteins; Region: T4SS; pfam07996 1208660008371 Helix-turn-helix domain; Region: HTH_36; pfam13730 1208660008372 integrase; Provisional; Region: int; PHA02601 1208660008373 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 1208660008374 active site 1208660008375 DNA binding site [nucleotide binding] 1208660008376 Int/Topo IB signature motif; other site 1208660008377 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1208660008378 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1208660008379 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1208660008380 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1208660008381 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208660008382 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1208660008383 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 1208660008384 DNA binding residues [nucleotide binding] 1208660008386 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1208660008387 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 1208660008388 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1208660008389 active site 1208660008390 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1208660008391 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 1208660008392 GDP-binding site [chemical binding]; other site 1208660008393 ACT binding site; other site 1208660008394 IMP binding site; other site 1208660008395 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1208660008396 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 1208660008397 dimer interface [polypeptide binding]; other site 1208660008398 motif 1; other site 1208660008399 active site 1208660008400 motif 2; other site 1208660008401 motif 3; other site 1208660008402 HflC protein; Region: hflC; TIGR01932 1208660008403 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 1208660008404 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 1208660008405 HflK protein; Region: hflK; TIGR01933 1208660008406 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1208660008407 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1208660008408 HflX GTPase family; Region: HflX; cd01878 1208660008409 G1 box; other site 1208660008410 GTP/Mg2+ binding site [chemical binding]; other site 1208660008411 Switch I region; other site 1208660008412 G2 box; other site 1208660008413 G3 box; other site 1208660008414 Switch II region; other site 1208660008415 G4 box; other site 1208660008416 G5 box; other site 1208660008417 bacterial Hfq-like; Region: Hfq; cd01716 1208660008418 hexamer interface [polypeptide binding]; other site 1208660008419 Sm1 motif; other site 1208660008420 RNA binding site [nucleotide binding]; other site 1208660008421 Sm2 motif; other site 1208660008422 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1208660008423 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 1208660008424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660008425 homodimer interface [polypeptide binding]; other site 1208660008426 catalytic residue [active] 1208660008427 GTP-binding protein Der; Reviewed; Region: PRK00093 1208660008428 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1208660008429 G1 box; other site 1208660008430 GTP/Mg2+ binding site [chemical binding]; other site 1208660008431 Switch I region; other site 1208660008432 G2 box; other site 1208660008433 Switch II region; other site 1208660008434 G3 box; other site 1208660008435 G4 box; other site 1208660008436 G5 box; other site 1208660008437 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1208660008438 G1 box; other site 1208660008439 GTP/Mg2+ binding site [chemical binding]; other site 1208660008440 Switch I region; other site 1208660008441 G2 box; other site 1208660008442 G3 box; other site 1208660008443 Switch II region; other site 1208660008444 G4 box; other site 1208660008445 G5 box; other site 1208660008446 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1208660008447 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1208660008448 Trp docking motif [polypeptide binding]; other site 1208660008449 active site 1208660008450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1208660008451 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1208660008452 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1208660008453 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 1208660008454 dimer interface [polypeptide binding]; other site 1208660008455 motif 1; other site 1208660008456 active site 1208660008457 motif 2; other site 1208660008458 motif 3; other site 1208660008459 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 1208660008460 anticodon binding site; other site 1208660008461 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1208660008462 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1208660008463 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1208660008464 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 1208660008465 non-specific DNA binding site [nucleotide binding]; other site 1208660008466 salt bridge; other site 1208660008467 sequence-specific DNA binding site [nucleotide binding]; other site 1208660008468 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1208660008469 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 1208660008470 active site 1208660008471 multimer interface [polypeptide binding]; other site 1208660008472 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1208660008473 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1208660008474 active site 1208660008475 HIGH motif; other site 1208660008476 nucleotide binding site [chemical binding]; other site 1208660008477 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1208660008478 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1208660008479 active site 1208660008480 KMSKS motif; other site 1208660008481 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1208660008482 tRNA binding surface [nucleotide binding]; other site 1208660008483 anticodon binding site; other site 1208660008484 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1208660008485 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1208660008486 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208660008487 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 1208660008488 active site 1208660008489 phosphorylation site [posttranslational modification] 1208660008490 intermolecular recognition site; other site 1208660008491 dimerization interface [polypeptide binding]; other site 1208660008492 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 1208660008493 DNA binding site [nucleotide binding] 1208660008495 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 1208660008496 homotrimer interaction site [polypeptide binding]; other site 1208660008497 putative active site [active] 1208660008499 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1208660008500 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1208660008501 RimM N-terminal domain; Region: RimM; pfam01782 1208660008502 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1208660008503 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 1208660008504 CPxP motif; other site 1208660008505 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1208660008506 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 1208660008507 motif 1; other site 1208660008508 active site 1208660008509 motif 2; other site 1208660008510 motif 3; other site 1208660008511 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1208660008513 Type II/IV secretion system protein; Region: T2SE; pfam00437 1208660008514 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 1208660008515 Walker A motif; other site 1208660008516 ATP binding site [chemical binding]; other site 1208660008517 Walker B motif; other site 1208660008519 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 1208660008520 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1208660008522 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660008523 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660008524 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208660008525 Amidase; Region: Amidase; pfam01425 1208660008526 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1208660008527 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660008528 Walker A/P-loop; other site 1208660008529 ATP binding site [chemical binding]; other site 1208660008530 Q-loop/lid; other site 1208660008531 ABC transporter signature motif; other site 1208660008532 Walker B; other site 1208660008533 D-loop; other site 1208660008534 H-loop/switch region; other site 1208660008535 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208660008536 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660008537 Walker A/P-loop; other site 1208660008538 ATP binding site [chemical binding]; other site 1208660008539 Q-loop/lid; other site 1208660008540 ABC transporter signature motif; other site 1208660008541 Walker B; other site 1208660008542 D-loop; other site 1208660008543 H-loop/switch region; other site 1208660008544 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208660008545 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1208660008546 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660008547 dimer interface [polypeptide binding]; other site 1208660008548 conserved gate region; other site 1208660008549 putative PBP binding loops; other site 1208660008550 ABC-ATPase subunit interface; other site 1208660008551 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208660008552 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660008553 dimer interface [polypeptide binding]; other site 1208660008554 conserved gate region; other site 1208660008555 putative PBP binding loops; other site 1208660008556 ABC-ATPase subunit interface; other site 1208660008557 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 1208660008558 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1208660008561 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660008562 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660008563 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 1208660008564 putative dimerization interface [polypeptide binding]; other site 1208660008565 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1208660008566 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1208660008567 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1208660008568 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1208660008569 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1208660008570 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1208660008571 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 1208660008572 catalytic loop [active] 1208660008573 iron binding site [ion binding]; other site 1208660008574 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 1208660008575 FAD binding pocket [chemical binding]; other site 1208660008576 FAD binding motif [chemical binding]; other site 1208660008577 phosphate binding motif [ion binding]; other site 1208660008578 beta-alpha-beta structure motif; other site 1208660008579 NAD binding pocket [chemical binding]; other site 1208660008580 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1208660008581 tetramerization interface [polypeptide binding]; other site 1208660008582 active site 1208660008583 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1208660008584 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1208660008585 MOSC domain; Region: MOSC; pfam03473 1208660008586 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208660008587 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660008588 DNA-binding site [nucleotide binding]; DNA binding site 1208660008589 UTRA domain; Region: UTRA; pfam07702 1208660008590 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1208660008591 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 1208660008592 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 1208660008593 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 1208660008594 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1208660008595 Ectoine synthase; Region: Ectoine_synth; pfam06339 1208660008596 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 1208660008597 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 1208660008598 inhibitor-cofactor binding pocket; inhibition site 1208660008599 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660008600 catalytic residue [active] 1208660008601 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208660008602 Coenzyme A binding pocket [chemical binding]; other site 1208660008603 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1208660008604 MarR family; Region: MarR; pfam01047 1208660008605 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1208660008606 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1208660008607 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 1208660008608 putative active site [active] 1208660008609 hypothetical protein; Provisional; Region: PRK07483 1208660008610 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 1208660008611 inhibitor-cofactor binding pocket; inhibition site 1208660008612 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660008613 catalytic residue [active] 1208660008614 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1208660008615 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1208660008616 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208660008617 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1208660008618 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1208660008619 Protein of unknown function (DUF418); Region: DUF418; pfam04235 1208660008620 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1208660008621 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 1208660008622 CAP-like domain; other site 1208660008623 active site 1208660008624 primary dimer interface [polypeptide binding]; other site 1208660008625 YcxB-like protein; Region: YcxB; pfam14317 1208660008626 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1208660008627 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 1208660008628 ATP binding site [chemical binding]; other site 1208660008629 Mg2+ binding site [ion binding]; other site 1208660008630 G-X-G motif; other site 1208660008631 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 1208660008632 anchoring element; other site 1208660008633 dimer interface [polypeptide binding]; other site 1208660008634 ATP binding site [chemical binding]; other site 1208660008635 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 1208660008636 active site 1208660008637 metal binding site [ion binding]; metal-binding site 1208660008638 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1208660008639 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 1208660008640 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1208660008641 catalytic residues [active] 1208660008642 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1208660008643 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1208660008644 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 1208660008645 RNA binding site [nucleotide binding]; other site 1208660008646 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 1208660008647 multimer interface [polypeptide binding]; other site 1208660008648 Walker A motif; other site 1208660008649 ATP binding site [chemical binding]; other site 1208660008650 Walker B motif; other site 1208660008651 TIGR02099 family protein; Region: TIGR02099 1208660008652 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1208660008653 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1208660008654 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1208660008655 metal binding triad; other site 1208660008656 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1208660008657 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1208660008658 metal binding triad; other site 1208660008659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1208660008660 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1208660008661 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1208660008662 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1208660008663 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1208660008664 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1208660008665 Dienelactone hydrolase family; Region: DLH; pfam01738 1208660008666 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1208660008667 DNA polymerase I; Provisional; Region: PRK05755 1208660008668 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1208660008669 active site 1208660008670 metal binding site 1 [ion binding]; metal-binding site 1208660008671 putative 5' ssDNA interaction site; other site 1208660008672 metal binding site 3; metal-binding site 1208660008673 metal binding site 2 [ion binding]; metal-binding site 1208660008674 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1208660008675 putative DNA binding site [nucleotide binding]; other site 1208660008676 putative metal binding site [ion binding]; other site 1208660008677 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 1208660008678 active site 1208660008679 catalytic site [active] 1208660008680 substrate binding site [chemical binding]; other site 1208660008681 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1208660008682 active site 1208660008683 DNA binding site [nucleotide binding] 1208660008684 catalytic site [active] 1208660008685 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1208660008686 subtilase cytotoxin subunit B-like protein; Provisional; Region: PRK15265; cl14664 1208660008687 Aerolysin/Pertussis toxin (APT) domain; Region: APT; pfam03440 1208660008688 Pertussis toxin, subunit 2 and 3, C-terminal domain; Region: Pertussis_S2S3; pfam02918 1208660008689 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1208660008690 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1208660008691 G1 box; other site 1208660008692 putative GEF interaction site [polypeptide binding]; other site 1208660008693 GTP/Mg2+ binding site [chemical binding]; other site 1208660008694 Switch I region; other site 1208660008695 G2 box; other site 1208660008696 G3 box; other site 1208660008697 Switch II region; other site 1208660008698 G4 box; other site 1208660008699 G5 box; other site 1208660008700 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 1208660008701 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 1208660008702 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00020 1208660008703 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1208660008704 RNA binding site [nucleotide binding]; other site 1208660008705 active site 1208660008706 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1208660008707 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1208660008708 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1208660008709 translation initiation factor IF-2; Region: IF-2; TIGR00487 1208660008710 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1208660008711 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1208660008712 G1 box; other site 1208660008713 putative GEF interaction site [polypeptide binding]; other site 1208660008714 GTP/Mg2+ binding site [chemical binding]; other site 1208660008715 Switch I region; other site 1208660008716 G2 box; other site 1208660008717 G3 box; other site 1208660008718 Switch II region; other site 1208660008719 G4 box; other site 1208660008720 G5 box; other site 1208660008721 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 1208660008722 Translation-initiation factor 2; Region: IF-2; pfam11987 1208660008723 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 1208660008724 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1208660008725 NusA N-terminal domain; Region: NusA_N; pfam08529 1208660008726 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 1208660008727 RNA binding site [nucleotide binding]; other site 1208660008728 homodimer interface [polypeptide binding]; other site 1208660008729 NusA-like KH domain; Region: KH_5; pfam13184 1208660008730 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 1208660008731 G-X-X-G motif; other site 1208660008732 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1208660008733 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1208660008734 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1208660008735 Sm and related proteins; Region: Sm_like; cl00259 1208660008736 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1208660008737 putative oligomer interface [polypeptide binding]; other site 1208660008738 putative RNA binding site [nucleotide binding]; other site 1208660008739 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1208660008740 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 1208660008741 RNA binding surface [nucleotide binding]; other site 1208660008742 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1208660008743 probable active site [active] 1208660008744 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1208660008745 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660008746 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660008747 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 1208660008748 putative effector binding pocket; other site 1208660008749 dimerization interface [polypeptide binding]; other site 1208660008750 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 1208660008751 putative FMN binding site [chemical binding]; other site 1208660008752 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1208660008753 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 1208660008754 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1208660008755 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1208660008756 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 1208660008757 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1208660008758 C-terminal domain interface [polypeptide binding]; other site 1208660008759 GSH binding site (G-site) [chemical binding]; other site 1208660008760 putative dimer interface [polypeptide binding]; other site 1208660008761 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1208660008762 dimer interface [polypeptide binding]; other site 1208660008763 N-terminal domain interface [polypeptide binding]; other site 1208660008764 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1208660008765 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1208660008766 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1208660008767 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1208660008768 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1208660008769 hypothetical protein; Reviewed; Region: PRK00024 1208660008770 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1208660008771 MPN+ (JAMM) motif; other site 1208660008772 Zinc-binding site [ion binding]; other site 1208660008773 arylformamidase; Region: trp_arylform; TIGR03035 1208660008774 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 1208660008775 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1208660008776 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1208660008777 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1208660008778 multidrug efflux protein; Reviewed; Region: PRK01766 1208660008779 cation binding site [ion binding]; other site 1208660008780 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1208660008781 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 1208660008782 DNA repair protein RadA; Provisional; Region: PRK11823 1208660008783 Walker A motif; other site 1208660008784 ATP binding site [chemical binding]; other site 1208660008785 Walker B motif; other site 1208660008786 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1208660008787 von Willebrand factor; Region: vWF_A; pfam12450 1208660008788 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 1208660008789 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 1208660008790 metal ion-dependent adhesion site (MIDAS); other site 1208660008791 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 1208660008792 RNA polymerase sigma factor; Provisional; Region: PRK12513 1208660008793 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208660008794 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 1208660008795 DNA binding residues [nucleotide binding] 1208660008796 short chain dehydrogenase; Provisional; Region: PRK07577 1208660008797 classical (c) SDRs; Region: SDR_c; cd05233 1208660008798 NAD(P) binding site [chemical binding]; other site 1208660008799 active site 1208660008800 alanine racemase; Reviewed; Region: alr; PRK00053 1208660008801 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1208660008802 active site 1208660008803 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1208660008804 substrate binding site [chemical binding]; other site 1208660008805 catalytic residues [active] 1208660008806 dimer interface [polypeptide binding]; other site 1208660008807 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1208660008808 active site lid residues [active] 1208660008809 substrate binding pocket [chemical binding]; other site 1208660008810 catalytic residues [active] 1208660008811 substrate-Mg2+ binding site; other site 1208660008812 aspartate-rich region 1; other site 1208660008813 aspartate-rich region 2; other site 1208660008814 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1208660008815 active site lid residues [active] 1208660008816 substrate binding pocket [chemical binding]; other site 1208660008817 catalytic residues [active] 1208660008818 substrate-Mg2+ binding site; other site 1208660008819 aspartate-rich region 1; other site 1208660008820 aspartate-rich region 2; other site 1208660008821 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1208660008822 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 1208660008823 chromosome condensation membrane protein; Provisional; Region: PRK14196 1208660008824 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1208660008825 nodulation ABC transporter NodI; Provisional; Region: PRK13537 1208660008826 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1208660008827 Walker A/P-loop; other site 1208660008828 ATP binding site [chemical binding]; other site 1208660008829 Q-loop/lid; other site 1208660008830 ABC transporter signature motif; other site 1208660008831 Walker B; other site 1208660008832 D-loop; other site 1208660008833 H-loop/switch region; other site 1208660008834 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 1208660008835 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1208660008836 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1208660008837 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 1208660008838 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1208660008839 ApbE family; Region: ApbE; pfam02424 1208660008840 Flavodoxin; Region: Flavodoxin_1; pfam00258 1208660008841 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 1208660008842 FAD binding pocket [chemical binding]; other site 1208660008843 FAD binding motif [chemical binding]; other site 1208660008844 catalytic residues [active] 1208660008845 NAD binding pocket [chemical binding]; other site 1208660008846 phosphate binding motif [ion binding]; other site 1208660008847 beta-alpha-beta structure motif; other site 1208660008848 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660008849 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1208660008850 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 1208660008851 active site 1208660008852 putative substrate binding pocket [chemical binding]; other site 1208660008853 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 1208660008854 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660008855 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660008856 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 1208660008857 putative dimerization interface [polypeptide binding]; other site 1208660008858 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 1208660008859 putative hydrophobic ligand binding site [chemical binding]; other site 1208660008860 protein interface [polypeptide binding]; other site 1208660008861 gate; other site 1208660008862 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 1208660008863 hypothetical protein; Provisional; Region: PRK02399 1208660008864 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 1208660008866 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208660008867 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208660008868 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208660008869 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208660008870 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1208660008871 Clp amino terminal domain; Region: Clp_N; pfam02861 1208660008872 Clp amino terminal domain; Region: Clp_N; pfam02861 1208660008873 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 1208660008874 Walker A motif; other site 1208660008875 ATP binding site [chemical binding]; other site 1208660008876 Walker B motif; other site 1208660008877 arginine finger; other site 1208660008878 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 1208660008879 Walker A motif; other site 1208660008880 ATP binding site [chemical binding]; other site 1208660008881 Walker B motif; other site 1208660008882 arginine finger; other site 1208660008883 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1208660008885 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 1208660008886 catalytic loop [active] 1208660008887 iron binding site [ion binding]; other site 1208660008888 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 1208660008889 dimer interface [polypeptide binding]; other site 1208660008890 ADP-ribose binding site [chemical binding]; other site 1208660008891 active site 1208660008892 nudix motif; other site 1208660008893 metal binding site [ion binding]; metal-binding site 1208660008894 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1208660008895 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 1208660008896 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208660008897 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1208660008898 DNA binding residues [nucleotide binding] 1208660008899 SnoaL-like domain; Region: SnoaL_2; pfam12680 1208660008900 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1208660008901 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1208660008902 NlpE N-terminal domain; Region: NlpE; pfam04170 1208660008903 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 1208660008904 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1208660008905 hypothetical protein; Validated; Region: PRK06201 1208660008906 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1208660008907 aspartate aminotransferase; Provisional; Region: PRK06107 1208660008908 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 1208660008909 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660008910 homodimer interface [polypeptide binding]; other site 1208660008911 catalytic residue [active] 1208660008912 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1208660008913 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 1208660008914 substrate binding pocket [chemical binding]; other site 1208660008915 membrane-bound complex binding site; other site 1208660008916 hinge residues; other site 1208660008917 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1208660008918 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660008919 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660008920 dimer interface [polypeptide binding]; other site 1208660008921 conserved gate region; other site 1208660008922 putative PBP binding loops; other site 1208660008923 ABC-ATPase subunit interface; other site 1208660008924 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660008925 dimer interface [polypeptide binding]; other site 1208660008926 conserved gate region; other site 1208660008927 putative PBP binding loops; other site 1208660008928 ABC-ATPase subunit interface; other site 1208660008929 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208660008930 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208660008931 Walker A/P-loop; other site 1208660008932 ATP binding site [chemical binding]; other site 1208660008933 Q-loop/lid; other site 1208660008934 ABC transporter signature motif; other site 1208660008935 Walker B; other site 1208660008936 D-loop; other site 1208660008937 H-loop/switch region; other site 1208660008938 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660008939 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660008940 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 1208660008941 dimerization interface [polypeptide binding]; other site 1208660008942 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208660008943 EamA-like transporter family; Region: EamA; pfam00892 1208660008944 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 1208660008945 dimer interface [polypeptide binding]; other site 1208660008946 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208660008947 metal binding site [ion binding]; metal-binding site 1208660008948 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1208660008949 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1208660008950 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660008951 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 1208660008952 putative dimerization interface [polypeptide binding]; other site 1208660008953 putative substrate binding pocket [chemical binding]; other site 1208660008954 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1208660008955 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1208660008956 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1208660008957 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208660008958 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208660008959 metal binding site [ion binding]; metal-binding site 1208660008960 active site 1208660008961 I-site; other site 1208660008962 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 1208660008963 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1208660008964 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1208660008965 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1208660008966 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1208660008967 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1208660008968 Walker A/P-loop; other site 1208660008969 ATP binding site [chemical binding]; other site 1208660008970 Q-loop/lid; other site 1208660008971 ABC transporter signature motif; other site 1208660008972 Walker B; other site 1208660008973 D-loop; other site 1208660008974 H-loop/switch region; other site 1208660008975 putative acetyltransferase; Provisional; Region: PRK03624 1208660008976 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208660008977 Coenzyme A binding pocket [chemical binding]; other site 1208660008979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1208660008980 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1208660008981 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1208660008982 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 1208660008983 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1208660008985 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 1208660008986 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1208660008987 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1208660008989 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1208660008990 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1208660008991 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1208660008992 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 1208660008993 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 1208660008994 inhibitor-cofactor binding pocket; inhibition site 1208660008995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660008996 catalytic residue [active] 1208660008997 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 1208660008998 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1208660008999 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208660009000 catalytic residue [active] 1208660009001 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 1208660009002 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 1208660009003 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1208660009004 AAA domain; Region: AAA_26; pfam13500 1208660009005 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1208660009006 LrgA family; Region: LrgA; pfam03788 1208660009007 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1208660009008 isocitrate lyase; Provisional; Region: PRK15063 1208660009009 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 1208660009010 tetramer interface [polypeptide binding]; other site 1208660009011 active site 1208660009012 Mg2+/Mn2+ binding site [ion binding]; other site 1208660009013 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1208660009014 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1208660009015 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1208660009016 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 1208660009017 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208660009018 putative substrate translocation pore; other site 1208660009019 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1208660009020 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1208660009021 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1208660009022 active site 1208660009023 catalytic site [active] 1208660009024 putative DNA binding site [nucleotide binding]; other site 1208660009025 GIY-YIG motif/motif A; other site 1208660009026 metal binding site [ion binding]; metal-binding site 1208660009027 UvrB/uvrC motif; Region: UVR; pfam02151 1208660009028 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1208660009029 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1208660009030 beta-hexosaminidase; Provisional; Region: PRK05337 1208660009031 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1208660009032 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 1208660009033 active site 1208660009034 hydrophilic channel; other site 1208660009035 dimerization interface [polypeptide binding]; other site 1208660009036 catalytic residues [active] 1208660009037 active site lid [active] 1208660009038 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1208660009039 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1208660009040 Protein export membrane protein; Region: SecD_SecF; cl14618 1208660009041 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1208660009042 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208660009043 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208660009044 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 1208660009045 DNA binding site [nucleotide binding] 1208660009046 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660009047 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660009048 YcfA-like protein; Region: YcfA; pfam07927 1208660009049 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1208660009050 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1208660009051 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660009052 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660009053 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 1208660009054 dimerization interface [polypeptide binding]; other site 1208660009055 substrate binding pocket [chemical binding]; other site 1208660009057 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 1208660009058 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 1208660009059 active site 1208660009061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208660009062 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 1208660009063 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 1208660009064 acyl-activating enzyme (AAE) consensus motif; other site 1208660009065 putative AMP binding site [chemical binding]; other site 1208660009066 putative active site [active] 1208660009067 putative CoA binding site [chemical binding]; other site 1208660009068 Restriction endonuclease; Region: Mrr_cat; pfam04471 1208660009069 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1208660009070 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660009071 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 1208660009072 dimerization interface [polypeptide binding]; other site 1208660009073 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660009075 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 1208660009076 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1208660009077 Predicted transcriptional regulators [Transcription]; Region: COG1378 1208660009078 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 1208660009079 dimerization interface [polypeptide binding]; other site 1208660009080 putative Zn2+ binding site [ion binding]; other site 1208660009081 putative DNA binding site [nucleotide binding]; other site 1208660009082 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 1208660009083 C-terminal domain interface [polypeptide binding]; other site 1208660009084 sugar binding site [chemical binding]; other site 1208660009085 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 1208660009086 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 1208660009087 tricarballylate utilization protein B; Provisional; Region: PRK15033 1208660009088 tricarballylate dehydrogenase; Validated; Region: PRK08274 1208660009090 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1208660009091 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208660009092 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208660009093 Walker A/P-loop; other site 1208660009094 ATP binding site [chemical binding]; other site 1208660009095 Q-loop/lid; other site 1208660009096 ABC transporter signature motif; other site 1208660009097 Walker B; other site 1208660009098 D-loop; other site 1208660009099 H-loop/switch region; other site 1208660009100 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208660009101 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660009102 dimer interface [polypeptide binding]; other site 1208660009103 conserved gate region; other site 1208660009104 putative PBP binding loops; other site 1208660009105 ABC-ATPase subunit interface; other site 1208660009106 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208660009107 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660009108 dimer interface [polypeptide binding]; other site 1208660009109 conserved gate region; other site 1208660009110 putative PBP binding loops; other site 1208660009111 ABC-ATPase subunit interface; other site 1208660009112 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1208660009113 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 1208660009114 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660009115 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660009116 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 1208660009117 dimerization interface [polypeptide binding]; other site 1208660009118 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208660009119 PYR/PP interface [polypeptide binding]; other site 1208660009120 dimer interface [polypeptide binding]; other site 1208660009121 TPP binding site [chemical binding]; other site 1208660009122 hypothetical protein; Provisional; Region: PRK06163 1208660009123 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 1208660009124 TPP-binding site [chemical binding]; other site 1208660009125 aspartate aminotransferase; Provisional; Region: PRK05764 1208660009126 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 1208660009127 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660009128 homodimer interface [polypeptide binding]; other site 1208660009129 catalytic residue [active] 1208660009130 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1208660009131 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1208660009132 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1208660009133 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1208660009134 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660009135 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 1208660009136 dimer interface [polypeptide binding]; other site 1208660009137 FMN binding site [chemical binding]; other site 1208660009138 NADPH bind site [chemical binding]; other site 1208660009140 Cache domain; Region: Cache_1; pfam02743 1208660009141 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208660009142 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208660009143 metal binding site [ion binding]; metal-binding site 1208660009144 active site 1208660009145 I-site; other site 1208660009146 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1208660009147 Ligand Binding Site [chemical binding]; other site 1208660009148 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 1208660009149 Ligand Binding Site [chemical binding]; other site 1208660009150 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 1208660009151 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1208660009152 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 1208660009153 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1208660009154 catalytic residue [active] 1208660009155 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1208660009156 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1208660009157 dinuclear metal binding motif [ion binding]; other site 1208660009159 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 1208660009161 cyanophycin synthetase; Region: cya_phycin_syn; TIGR02068 1208660009162 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208660009163 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208660009164 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208660009165 cyanophycin synthetase; Region: cya_phycin_syn; TIGR02068 1208660009166 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208660009167 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208660009168 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208660009169 CsbD-like; Region: CsbD; cl17424 1208660009170 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1208660009173 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1208660009174 Iron permease FTR1 family; Region: FTR1; cl00475 1208660009175 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1208660009176 Fe2+ transport protein; Region: Iron_transport; pfam10634 1208660009177 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 1208660009178 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 1208660009179 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1208660009180 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1208660009181 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 1208660009182 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1208660009183 NAD(P) binding site [chemical binding]; other site 1208660009184 homotetramer interface [polypeptide binding]; other site 1208660009185 homodimer interface [polypeptide binding]; other site 1208660009186 active site 1208660009187 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1208660009188 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1208660009189 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1208660009190 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1208660009191 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1208660009192 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 1208660009193 RNA binding surface [nucleotide binding]; other site 1208660009194 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1208660009195 active site 1208660009196 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1208660009197 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1208660009198 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 1208660009199 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1208660009200 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1208660009201 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1208660009202 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1208660009203 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 1208660009204 RNA binding site [nucleotide binding]; other site 1208660009205 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 1208660009206 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1208660009207 active site 1208660009208 HIGH motif; other site 1208660009209 dimer interface [polypeptide binding]; other site 1208660009210 KMSKS motif; other site 1208660009211 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 1208660009212 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1208660009213 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1208660009214 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1208660009216 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1208660009217 FecR protein; Region: FecR; pfam04773 1208660009218 RNA polymerase sigma factor; Provisional; Region: PRK12528 1208660009219 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208660009220 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 1208660009221 DNA binding residues [nucleotide binding] 1208660009222 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 1208660009223 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1208660009224 active site 1208660009225 iron coordination sites [ion binding]; other site 1208660009226 substrate binding pocket [chemical binding]; other site 1208660009228 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660009229 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1208660009230 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660009231 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 1208660009232 dimerization interface [polypeptide binding]; other site 1208660009233 substrate binding pocket [chemical binding]; other site 1208660009234 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208660009235 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660009236 NAD(P) binding site [chemical binding]; other site 1208660009237 active site 1208660009238 Predicted ATPase [General function prediction only]; Region: COG1485 1208660009239 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660009240 Walker B; other site 1208660009241 D-loop; other site 1208660009242 H-loop/switch region; other site 1208660009243 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1208660009244 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208660009245 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1208660009246 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1208660009247 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 1208660009248 E3 interaction surface; other site 1208660009249 lipoyl attachment site [posttranslational modification]; other site 1208660009250 e3 binding domain; Region: E3_binding; pfam02817 1208660009251 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1208660009252 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1208660009253 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 1208660009254 TPP-binding site [chemical binding]; other site 1208660009255 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1208660009256 Predicted membrane protein [Function unknown]; Region: COG1297 1208660009257 putative oligopeptide transporter, OPT family; Region: TIGR00733 1208660009259 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 1208660009260 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 1208660009261 dimer interface [polypeptide binding]; other site 1208660009262 TPP-binding site [chemical binding]; other site 1208660009263 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1208660009264 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1208660009265 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1208660009266 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1208660009267 putative NAD(P) binding site [chemical binding]; other site 1208660009268 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1208660009269 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1208660009270 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 1208660009271 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 1208660009272 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1208660009273 dimer interface [polypeptide binding]; other site 1208660009274 active site 1208660009275 citrylCoA binding site [chemical binding]; other site 1208660009276 NADH binding [chemical binding]; other site 1208660009277 cationic pore residues; other site 1208660009278 oxalacetate/citrate binding site [chemical binding]; other site 1208660009279 coenzyme A binding site [chemical binding]; other site 1208660009280 catalytic triad [active] 1208660009281 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 1208660009282 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1208660009283 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1208660009284 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 1208660009285 L-aspartate oxidase; Provisional; Region: PRK06175 1208660009286 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1208660009287 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 1208660009288 SdhC subunit interface [polypeptide binding]; other site 1208660009289 proximal heme binding site [chemical binding]; other site 1208660009290 cardiolipin binding site; other site 1208660009291 Iron-sulfur protein interface; other site 1208660009292 proximal quinone binding site [chemical binding]; other site 1208660009293 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 1208660009294 Iron-sulfur protein interface; other site 1208660009295 proximal quinone binding site [chemical binding]; other site 1208660009296 SdhD (CybS) interface [polypeptide binding]; other site 1208660009297 proximal heme binding site [chemical binding]; other site 1208660009298 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208660009299 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660009300 DNA-binding site [nucleotide binding]; DNA binding site 1208660009301 UTRA domain; Region: UTRA; pfam07702 1208660009302 malate dehydrogenase; Provisional; Region: PRK05442 1208660009303 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 1208660009304 NAD(P) binding site [chemical binding]; other site 1208660009305 dimer interface [polypeptide binding]; other site 1208660009306 malate binding site [chemical binding]; other site 1208660009307 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1208660009308 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 1208660009309 tetramer interface [polypeptide binding]; other site 1208660009310 active site 1208660009311 Mg2+/Mn2+ binding site [ion binding]; other site 1208660009312 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1208660009313 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 1208660009314 dimer interface [polypeptide binding]; other site 1208660009315 active site 1208660009316 citrylCoA binding site [chemical binding]; other site 1208660009317 oxalacetate/citrate binding site [chemical binding]; other site 1208660009318 coenzyme A binding site [chemical binding]; other site 1208660009319 catalytic triad [active] 1208660009320 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1208660009321 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1208660009322 substrate binding site [chemical binding]; other site 1208660009323 ligand binding site [chemical binding]; other site 1208660009324 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 1208660009325 substrate binding site [chemical binding]; other site 1208660009326 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1208660009327 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1208660009328 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1208660009329 Predicted membrane protein [Function unknown]; Region: COG1981 1208660009330 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1208660009331 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1208660009332 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 1208660009333 S-adenosylmethionine binding site [chemical binding]; other site 1208660009334 RDD family; Region: RDD; pfam06271 1208660009335 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1208660009336 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1208660009337 putative active site [active] 1208660009338 putative metal binding site [ion binding]; other site 1208660009339 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1208660009340 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 1208660009341 active site 1208660009342 acyl-activating enzyme (AAE) consensus motif; other site 1208660009343 putative CoA binding site [chemical binding]; other site 1208660009344 AMP binding site [chemical binding]; other site 1208660009345 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1208660009346 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 1208660009347 trimer interface [polypeptide binding]; other site 1208660009348 putative metal binding site [ion binding]; other site 1208660009349 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1208660009350 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 1208660009351 dimerization interface [polypeptide binding]; other site 1208660009352 domain crossover interface; other site 1208660009353 redox-dependent activation switch; other site 1208660009354 Cupin domain; Region: Cupin_2; pfam07883 1208660009355 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1208660009356 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1208660009357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660009358 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1208660009359 NAD(P) binding site [chemical binding]; other site 1208660009360 active site 1208660009361 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1208660009362 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 1208660009363 DNA binding site [nucleotide binding] 1208660009364 Predicted integral membrane protein [Function unknown]; Region: COG5616 1208660009365 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 1208660009366 TPR motif; other site 1208660009367 binding surface 1208660009368 TPR repeat; Region: TPR_11; pfam13414 1208660009369 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 1208660009370 TPR motif; other site 1208660009371 TPR repeat; Region: TPR_11; pfam13414 1208660009372 binding surface 1208660009373 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1208660009374 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1208660009375 enolase; Provisional; Region: eno; PRK00077 1208660009376 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 1208660009377 dimer interface [polypeptide binding]; other site 1208660009378 metal binding site [ion binding]; metal-binding site 1208660009379 substrate binding pocket [chemical binding]; other site 1208660009380 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1208660009381 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1208660009382 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1208660009383 CTP synthetase; Validated; Region: pyrG; PRK05380 1208660009384 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 1208660009385 Catalytic site [active] 1208660009386 active site 1208660009387 UTP binding site [chemical binding]; other site 1208660009388 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1208660009389 active site 1208660009390 putative oxyanion hole; other site 1208660009391 catalytic triad [active] 1208660009392 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1208660009393 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1208660009394 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1208660009395 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 1208660009396 active site 1208660009397 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 1208660009398 SxDxEG motif; other site 1208660009399 active site 1208660009400 metal binding site [ion binding]; metal-binding site 1208660009401 homopentamer interface [polypeptide binding]; other site 1208660009402 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 1208660009403 homodimer interface [polypeptide binding]; other site 1208660009404 homotetramer interface [polypeptide binding]; other site 1208660009405 active site pocket [active] 1208660009406 cleavage site 1208660009407 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 1208660009408 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1208660009409 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660009410 dimer interface [polypeptide binding]; other site 1208660009411 conserved gate region; other site 1208660009412 putative PBP binding loops; other site 1208660009413 ABC-ATPase subunit interface; other site 1208660009414 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 1208660009415 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660009416 dimer interface [polypeptide binding]; other site 1208660009417 conserved gate region; other site 1208660009418 putative PBP binding loops; other site 1208660009419 ABC-ATPase subunit interface; other site 1208660009420 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 1208660009421 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 1208660009422 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 1208660009423 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660009424 Walker A/P-loop; other site 1208660009425 ATP binding site [chemical binding]; other site 1208660009426 Q-loop/lid; other site 1208660009427 ABC transporter signature motif; other site 1208660009428 Walker B; other site 1208660009429 D-loop; other site 1208660009430 H-loop/switch region; other site 1208660009431 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1208660009432 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660009433 Walker A/P-loop; other site 1208660009434 ATP binding site [chemical binding]; other site 1208660009435 Q-loop/lid; other site 1208660009436 ABC transporter signature motif; other site 1208660009437 Walker B; other site 1208660009438 D-loop; other site 1208660009439 H-loop/switch region; other site 1208660009440 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1208660009441 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 1208660009442 catalytic nucleophile [active] 1208660009443 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1208660009444 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1208660009445 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 1208660009446 putative active site [active] 1208660009447 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1208660009448 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1208660009449 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 1208660009450 active site 1208660009451 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1208660009452 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1208660009453 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1208660009454 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660009455 NAD(P) binding site [chemical binding]; other site 1208660009456 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1208660009457 active site 1208660009458 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1208660009459 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1208660009460 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 1208660009461 tetramer interface [polypeptide binding]; other site 1208660009462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660009463 catalytic residue [active] 1208660009464 EamA-like transporter family; Region: EamA; pfam00892 1208660009465 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1208660009466 EamA-like transporter family; Region: EamA; pfam00892 1208660009467 acetyl-CoA synthetase; Provisional; Region: PRK00174 1208660009468 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1208660009469 active site 1208660009470 CoA binding site [chemical binding]; other site 1208660009471 acyl-activating enzyme (AAE) consensus motif; other site 1208660009472 AMP binding site [chemical binding]; other site 1208660009473 acetate binding site [chemical binding]; other site 1208660009474 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 1208660009475 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 1208660009476 putative substrate translocation pore; other site 1208660009477 Domain of unknown function (DUF336); Region: DUF336; cl01249 1208660009478 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1208660009479 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1208660009480 acyl-activating enzyme (AAE) consensus motif; other site 1208660009481 putative AMP binding site [chemical binding]; other site 1208660009482 putative active site [active] 1208660009483 putative CoA binding site [chemical binding]; other site 1208660009484 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1208660009485 NlpC/P60 family; Region: NLPC_P60; pfam00877 1208660009486 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 1208660009487 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 1208660009488 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660009489 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1208660009490 substrate binding site [chemical binding]; other site 1208660009491 dimerization interface [polypeptide binding]; other site 1208660009492 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1208660009493 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1208660009494 tetrameric interface [polypeptide binding]; other site 1208660009495 NAD binding site [chemical binding]; other site 1208660009496 catalytic residues [active] 1208660009497 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208660009498 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 1208660009499 putative ligand binding site [chemical binding]; other site 1208660009500 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660009501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660009502 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 1208660009503 dimerization interface [polypeptide binding]; other site 1208660009504 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1208660009505 Predicted permeases [General function prediction only]; Region: COG0795 1208660009506 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1208660009507 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 1208660009508 interface (dimer of trimers) [polypeptide binding]; other site 1208660009509 Substrate-binding/catalytic site; other site 1208660009510 Zn-binding sites [ion binding]; other site 1208660009511 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1208660009512 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1208660009513 YccA-like proteins; Region: YccA_like; cd10433 1208660009514 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660009515 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 1208660009516 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1208660009517 putative active site [active] 1208660009518 Zn binding site [ion binding]; other site 1208660009519 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 1208660009520 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1208660009521 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208660009522 catalytic residue [active] 1208660009523 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1208660009524 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660009525 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 1208660009526 dimerization interface [polypeptide binding]; other site 1208660009527 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1208660009528 Recombination protein O N terminal; Region: RecO_N; pfam11967 1208660009529 Recombination protein O C terminal; Region: RecO_C; pfam02565 1208660009530 GTPase Era; Reviewed; Region: era; PRK00089 1208660009531 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1208660009532 G1 box; other site 1208660009533 GTP/Mg2+ binding site [chemical binding]; other site 1208660009534 Switch I region; other site 1208660009535 G2 box; other site 1208660009536 Switch II region; other site 1208660009537 G3 box; other site 1208660009538 G4 box; other site 1208660009539 G5 box; other site 1208660009540 KH domain; Region: KH_2; pfam07650 1208660009541 ribonuclease III; Reviewed; Region: rnc; PRK00102 1208660009542 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 1208660009543 dimerization interface [polypeptide binding]; other site 1208660009544 active site 1208660009545 metal binding site [ion binding]; metal-binding site 1208660009546 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 1208660009547 dsRNA binding site [nucleotide binding]; other site 1208660009548 signal peptidase I; Provisional; Region: PRK10861 1208660009549 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 1208660009550 Catalytic site [active] 1208660009551 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 1208660009552 GTP-binding protein LepA; Provisional; Region: PRK05433 1208660009553 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1208660009554 G1 box; other site 1208660009555 putative GEF interaction site [polypeptide binding]; other site 1208660009556 GTP/Mg2+ binding site [chemical binding]; other site 1208660009557 Switch I region; other site 1208660009558 G2 box; other site 1208660009559 G3 box; other site 1208660009560 Switch II region; other site 1208660009561 G4 box; other site 1208660009562 G5 box; other site 1208660009563 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 1208660009564 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 1208660009565 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1208660009566 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1208660009567 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1208660009568 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 1208660009569 protein binding site [polypeptide binding]; other site 1208660009570 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 1208660009571 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1208660009572 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1208660009573 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1208660009574 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 1208660009575 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208660009576 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 1208660009577 DNA binding residues [nucleotide binding] 1208660009578 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1208660009579 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 1208660009580 dimer interface [polypeptide binding]; other site 1208660009581 active site 1208660009582 acyl carrier protein; Provisional; Region: acpP; PRK00982 1208660009583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660009584 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1208660009585 NAD(P) binding site [chemical binding]; other site 1208660009586 active site 1208660009587 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1208660009588 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1208660009589 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1208660009590 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 1208660009591 dimer interface [polypeptide binding]; other site 1208660009592 active site 1208660009593 CoA binding pocket [chemical binding]; other site 1208660009594 putative phosphate acyltransferase; Provisional; Region: PRK05331 1208660009595 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1208660009596 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1208660009597 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 1208660009598 active site 1208660009599 dimer interface [polypeptide binding]; other site 1208660009600 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 1208660009601 putative SAM binding site [chemical binding]; other site 1208660009602 homodimer interface [polypeptide binding]; other site 1208660009603 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1208660009604 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 1208660009605 amidase catalytic site [active] 1208660009606 Zn binding residues [ion binding]; other site 1208660009607 substrate binding site [chemical binding]; other site 1208660009608 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1208660009609 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1208660009610 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1208660009611 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 1208660009612 Moco binding site; other site 1208660009613 metal coordination site [ion binding]; other site 1208660009614 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1208660009615 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 1208660009616 motif II; other site 1208660009617 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1208660009618 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 1208660009619 RNA binding surface [nucleotide binding]; other site 1208660009620 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1208660009621 active site 1208660009622 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1208660009623 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 1208660009624 homodimer interface [polypeptide binding]; other site 1208660009625 oligonucleotide binding site [chemical binding]; other site 1208660009626 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 1208660009627 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1208660009628 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1208660009629 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1208660009630 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1208660009631 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 1208660009632 substrate binding site [chemical binding]; other site 1208660009633 active site 1208660009634 catalytic residues [active] 1208660009635 heterodimer interface [polypeptide binding]; other site 1208660009636 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1208660009637 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 1208660009638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660009639 catalytic residue [active] 1208660009640 acetylornithine deacetylase; Provisional; Region: PRK07522 1208660009641 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1208660009642 metal binding site [ion binding]; metal-binding site 1208660009643 putative dimer interface [polypeptide binding]; other site 1208660009644 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1208660009645 HD domain; Region: HD_4; pfam13328 1208660009646 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1208660009647 synthetase active site [active] 1208660009648 NTP binding site [chemical binding]; other site 1208660009649 metal binding site [ion binding]; metal-binding site 1208660009650 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 1208660009651 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1208660009652 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 1208660009653 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1208660009654 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 1208660009655 homotrimer interaction site [polypeptide binding]; other site 1208660009656 putative active site [active] 1208660009657 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1208660009658 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 1208660009659 active site 1208660009660 Ferredoxin [Energy production and conversion]; Region: COG1146 1208660009661 4Fe-4S binding domain; Region: Fer4; pfam00037 1208660009662 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1208660009663 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1208660009664 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 1208660009665 FAD binding pocket [chemical binding]; other site 1208660009666 FAD binding motif [chemical binding]; other site 1208660009667 phosphate binding motif [ion binding]; other site 1208660009668 beta-alpha-beta structure motif; other site 1208660009669 NAD binding pocket [chemical binding]; other site 1208660009670 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1208660009671 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1208660009672 ferredoxin; Provisional; Region: PRK08764 1208660009673 Putative Fe-S cluster; Region: FeS; cl17515 1208660009674 4Fe-4S binding domain; Region: Fer4; cl02805 1208660009675 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1208660009676 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1208660009677 minor groove reading motif; other site 1208660009678 helix-hairpin-helix signature motif; other site 1208660009679 substrate binding pocket [chemical binding]; other site 1208660009680 active site 1208660009681 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1208660009682 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208660009683 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208660009684 Walker A/P-loop; other site 1208660009685 ATP binding site [chemical binding]; other site 1208660009686 Q-loop/lid; other site 1208660009687 ABC transporter signature motif; other site 1208660009688 Walker B; other site 1208660009689 D-loop; other site 1208660009690 H-loop/switch region; other site 1208660009691 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208660009692 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660009693 Walker A/P-loop; other site 1208660009694 ATP binding site [chemical binding]; other site 1208660009695 Q-loop/lid; other site 1208660009696 ABC transporter signature motif; other site 1208660009697 Walker B; other site 1208660009698 D-loop; other site 1208660009699 H-loop/switch region; other site 1208660009700 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208660009701 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 1208660009702 putative ligand binding site [chemical binding]; other site 1208660009703 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 1208660009704 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660009705 TM-ABC transporter signature motif; other site 1208660009706 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208660009707 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 1208660009708 TM-ABC transporter signature motif; other site 1208660009709 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1208660009710 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1208660009711 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1208660009712 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 1208660009713 homodimer interface [polypeptide binding]; other site 1208660009714 substrate-cofactor binding pocket; other site 1208660009715 catalytic residue [active] 1208660009716 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208660009717 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660009718 Walker A/P-loop; other site 1208660009719 ATP binding site [chemical binding]; other site 1208660009720 Q-loop/lid; other site 1208660009721 ABC transporter signature motif; other site 1208660009722 Walker B; other site 1208660009723 D-loop; other site 1208660009724 H-loop/switch region; other site 1208660009726 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 1208660009727 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660009728 TM-ABC transporter signature motif; other site 1208660009729 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208660009730 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 1208660009731 putative ligand binding site [chemical binding]; other site 1208660009732 BioY family; Region: BioY; pfam02632 1208660009733 Cobalt transport protein; Region: CbiQ; cl00463 1208660009734 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1208660009735 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1208660009736 Walker A/P-loop; other site 1208660009737 ATP binding site [chemical binding]; other site 1208660009738 Q-loop/lid; other site 1208660009739 ABC transporter signature motif; other site 1208660009740 Walker B; other site 1208660009741 D-loop; other site 1208660009742 H-loop/switch region; other site 1208660009743 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1208660009744 SelR domain; Region: SelR; pfam01641 1208660009745 intracellular septation protein A; Reviewed; Region: PRK00259 1208660009746 BolA-like protein; Region: BolA; pfam01722 1208660009747 SurA N-terminal domain; Region: SurA_N_3; cl07813 1208660009748 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 1208660009749 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1208660009750 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1208660009751 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 1208660009752 nucleotide binding pocket [chemical binding]; other site 1208660009753 K-X-D-G motif; other site 1208660009754 catalytic site [active] 1208660009755 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1208660009756 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1208660009757 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 1208660009758 Dimer interface [polypeptide binding]; other site 1208660009759 BRCT sequence motif; other site 1208660009760 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 1208660009761 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1208660009762 AAA domain; Region: AAA_23; pfam13476 1208660009763 Walker A/P-loop; other site 1208660009764 ATP binding site [chemical binding]; other site 1208660009765 Q-loop/lid; other site 1208660009766 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1208660009767 ABC transporter signature motif; other site 1208660009768 Walker B; other site 1208660009769 D-loop; other site 1208660009770 H-loop/switch region; other site 1208660009771 lysophospholipid transporter LplT; Provisional; Region: PRK11195 1208660009772 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 1208660009773 putative substrate translocation pore; other site 1208660009774 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1208660009775 Fe-S cluster binding site [ion binding]; other site 1208660009776 active site 1208660009777 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1208660009778 Glycoprotease family; Region: Peptidase_M22; pfam00814 1208660009779 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1208660009780 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208660009781 Coenzyme A binding pocket [chemical binding]; other site 1208660009782 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1208660009783 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 1208660009784 active site 1208660009785 phosphorylation site [posttranslational modification] 1208660009786 intermolecular recognition site; other site 1208660009787 dimerization interface [polypeptide binding]; other site 1208660009788 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 1208660009789 DNA binding site [nucleotide binding] 1208660009790 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 1208660009791 dimerization interface [polypeptide binding]; other site 1208660009792 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 1208660009793 dimer interface [polypeptide binding]; other site 1208660009794 phosphorylation site [posttranslational modification] 1208660009795 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 1208660009796 ATP binding site [chemical binding]; other site 1208660009797 Mg2+ binding site [ion binding]; other site 1208660009798 G-X-G motif; other site 1208660009799 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1208660009800 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 1208660009801 dimer interface [polypeptide binding]; other site 1208660009802 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1208660009803 catalytic triad [active] 1208660009804 peroxidatic and resolving cysteines [active] 1208660009805 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 1208660009806 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1208660009807 Helix-turn-helix domain; Region: HTH_18; pfam12833 1208660009808 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208660009809 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 1208660009810 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1208660009811 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 1208660009812 homotrimer interaction site [polypeptide binding]; other site 1208660009813 zinc binding site [ion binding]; other site 1208660009814 CDP-binding sites; other site 1208660009815 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1208660009816 substrate binding site; other site 1208660009817 dimer interface; other site 1208660009818 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1208660009819 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1208660009820 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 1208660009821 ATP binding site [chemical binding]; other site 1208660009822 putative Mg++ binding site [ion binding]; other site 1208660009823 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 1208660009824 nucleotide binding region [chemical binding]; other site 1208660009825 ATP-binding site [chemical binding]; other site 1208660009826 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1208660009827 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1208660009828 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 1208660009829 motif II; other site 1208660009830 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660009831 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660009832 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 1208660009833 putative dimerization interface [polypeptide binding]; other site 1208660009834 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660009835 acetolactate synthase catalytic subunit; Validated; Region: PRK06112 1208660009836 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208660009837 PYR/PP interface [polypeptide binding]; other site 1208660009838 dimer interface [polypeptide binding]; other site 1208660009839 TPP binding site [chemical binding]; other site 1208660009840 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208660009841 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 1208660009842 TPP-binding site [chemical binding]; other site 1208660009843 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 1208660009844 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660009845 NAD(P) binding site [chemical binding]; other site 1208660009846 active site 1208660009847 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1208660009848 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1208660009851 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 1208660009852 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1208660009853 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1208660009854 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1208660009855 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1208660009856 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1208660009857 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1208660009858 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1208660009859 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1208660009860 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1208660009861 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1208660009862 4Fe-4S binding domain; Region: Fer4; pfam00037 1208660009863 4Fe-4S binding domain; Region: Fer4; cl02805 1208660009864 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1208660009865 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1208660009866 NADH dehydrogenase subunit G; Validated; Region: PRK09129 1208660009867 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 1208660009868 catalytic loop [active] 1208660009869 iron binding site [ion binding]; other site 1208660009870 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1208660009871 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 1208660009872 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1208660009873 SLBB domain; Region: SLBB; pfam10531 1208660009874 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1208660009875 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1208660009876 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 1208660009877 putative dimer interface [polypeptide binding]; other site 1208660009878 [2Fe-2S] cluster binding site [ion binding]; other site 1208660009879 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1208660009880 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1208660009881 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1208660009882 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1208660009883 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1208660009884 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1208660009885 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1208660009886 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 1208660009887 trimer interface [polypeptide binding]; other site 1208660009888 eyelet of channel; other site 1208660009889 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660009890 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660009891 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 1208660009892 CoenzymeA binding site [chemical binding]; other site 1208660009893 subunit interaction site [polypeptide binding]; other site 1208660009894 PHB binding site; other site 1208660009895 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 1208660009896 active site 1208660009897 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1208660009898 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1208660009899 active site 1208660009900 metal binding site [ion binding]; metal-binding site 1208660009902 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660009903 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660009904 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1208660009905 dimerization interface [polypeptide binding]; other site 1208660009906 BCCT family transporter; Region: BCCT; cl00569 1208660009907 Predicted transcriptional regulators [Transcription]; Region: COG1733 1208660009908 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1208660009911 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1208660009912 Predicted transcriptional regulator [Transcription]; Region: COG2345 1208660009913 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1208660009914 azurin; Region: azurin; TIGR02695 1208660009915 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660009917 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1208660009918 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1208660009919 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1208660009920 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208660009921 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660009922 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 1208660009923 active site residue [active] 1208660009924 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 1208660009925 active site residue [active] 1208660009926 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 1208660009927 active site residue [active] 1208660009928 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 1208660009929 active site residue [active] 1208660009930 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660009931 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1208660009932 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1208660009933 active site 1208660009934 Zn binding site [ion binding]; other site 1208660009935 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1208660009936 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 1208660009937 homodimer interface [polypeptide binding]; other site 1208660009938 substrate-cofactor binding pocket; other site 1208660009939 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660009940 catalytic residue [active] 1208660009941 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 1208660009942 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660009943 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 1208660009944 putative dimerization interface [polypeptide binding]; other site 1208660009945 short chain dehydrogenase; Provisional; Region: PRK08339 1208660009946 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1208660009947 putative NAD(P) binding site [chemical binding]; other site 1208660009948 putative active site [active] 1208660009949 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660009950 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 1208660009951 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1208660009952 active sites [active] 1208660009953 tetramer interface [polypeptide binding]; other site 1208660009954 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1208660009955 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660009956 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 1208660009957 dimer interface [polypeptide binding]; other site 1208660009958 Methylaspartate ammonia-lyase C-terminus; Region: MAAL_C; pfam07476 1208660009959 active site 1208660009960 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660009961 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208660009962 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660009963 BCCT family transporter; Region: BCCT; cl00569 1208660009964 Preprotein translocase SecG subunit; Region: SecG; cl09123 1208660009965 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 1208660009966 triosephosphate isomerase; Provisional; Region: PRK14567 1208660009967 substrate binding site [chemical binding]; other site 1208660009968 dimer interface [polypeptide binding]; other site 1208660009969 catalytic triad [active] 1208660009970 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1208660009971 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1208660009972 NAD(P) binding site [chemical binding]; other site 1208660009973 PIN domain; Region: PIN_3; pfam13470 1208660009974 threonine dehydratase; Provisional; Region: PRK07334 1208660009975 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 1208660009976 tetramer interface [polypeptide binding]; other site 1208660009977 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660009978 catalytic residue [active] 1208660009979 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 1208660009980 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1208660009981 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1208660009982 RNase E interface [polypeptide binding]; other site 1208660009983 trimer interface [polypeptide binding]; other site 1208660009984 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1208660009985 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1208660009986 RNase E interface [polypeptide binding]; other site 1208660009987 trimer interface [polypeptide binding]; other site 1208660009988 active site 1208660009989 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 1208660009990 putative nucleic acid binding region [nucleotide binding]; other site 1208660009991 G-X-X-G motif; other site 1208660009992 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 1208660009993 RNA binding site [nucleotide binding]; other site 1208660009994 domain interface; other site 1208660009995 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 1208660009996 16S/18S rRNA binding site [nucleotide binding]; other site 1208660009997 S13e-L30e interaction site [polypeptide binding]; other site 1208660009998 25S rRNA binding site [nucleotide binding]; other site 1208660009999 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1208660010000 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 1208660010001 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1208660010002 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1208660010003 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1208660010004 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1208660010005 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1208660010006 putative valine binding site [chemical binding]; other site 1208660010007 dimer interface [polypeptide binding]; other site 1208660010008 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1208660010009 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 1208660010010 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208660010011 PYR/PP interface [polypeptide binding]; other site 1208660010012 dimer interface [polypeptide binding]; other site 1208660010013 TPP binding site [chemical binding]; other site 1208660010014 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208660010015 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 1208660010016 TPP-binding site [chemical binding]; other site 1208660010017 dimer interface [polypeptide binding]; other site 1208660010020 hypothetical protein; Validated; Region: PRK02101 1208660010021 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1208660010022 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 1208660010023 NAD binding site [chemical binding]; other site 1208660010024 homotetramer interface [polypeptide binding]; other site 1208660010025 homodimer interface [polypeptide binding]; other site 1208660010026 substrate binding site [chemical binding]; other site 1208660010027 active site 1208660010028 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1208660010029 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1208660010030 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660010031 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660010032 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 1208660010033 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1208660010034 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1208660010035 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1208660010036 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1208660010037 IucA / IucC family; Region: IucA_IucC; pfam04183 1208660010038 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1208660010039 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 1208660010040 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1208660010041 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 1208660010042 [2Fe-2S] cluster binding site [ion binding]; other site 1208660010043 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1208660010044 alpha subunit interface [polypeptide binding]; other site 1208660010045 active site 1208660010046 substrate binding site [chemical binding]; other site 1208660010047 Fe binding site [ion binding]; other site 1208660010048 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1208660010049 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208660010050 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 1208660010051 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1208660010052 putative substrate translocation pore; other site 1208660010053 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1208660010054 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 1208660010055 N-terminal plug; other site 1208660010056 ligand-binding site [chemical binding]; other site 1208660010057 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1208660010058 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208660010059 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208660010060 metal binding site [ion binding]; metal-binding site 1208660010061 active site 1208660010062 I-site; other site 1208660010063 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660010064 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660010065 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1208660010066 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1208660010067 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1208660010068 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1208660010069 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1208660010070 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1208660010071 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 1208660010072 IMP binding site; other site 1208660010073 dimer interface [polypeptide binding]; other site 1208660010074 interdomain contacts; other site 1208660010075 partial ornithine binding site; other site 1208660010076 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1208660010077 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1208660010078 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1208660010079 catalytic site [active] 1208660010080 subunit interface [polypeptide binding]; other site 1208660010081 transaldolase-like protein; Provisional; Region: PTZ00411 1208660010082 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1208660010083 active site 1208660010084 dimer interface [polypeptide binding]; other site 1208660010085 catalytic residue [active] 1208660010087 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208660010088 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208660010089 Walker A/P-loop; other site 1208660010090 ATP binding site [chemical binding]; other site 1208660010091 Q-loop/lid; other site 1208660010092 ABC transporter signature motif; other site 1208660010093 Walker B; other site 1208660010094 D-loop; other site 1208660010095 H-loop/switch region; other site 1208660010096 NMT1-like family; Region: NMT1_2; pfam13379 1208660010097 NMT1/THI5 like; Region: NMT1; pfam09084 1208660010098 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660010099 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660010100 recombination protein RecR; Reviewed; Region: recR; PRK00076 1208660010101 RecR protein; Region: RecR; pfam02132 1208660010102 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 1208660010103 putative active site [active] 1208660010104 putative metal-binding site [ion binding]; other site 1208660010105 tetramer interface [polypeptide binding]; other site 1208660010106 hypothetical protein; Validated; Region: PRK00153 1208660010107 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1208660010108 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 1208660010109 Walker A motif; other site 1208660010110 ATP binding site [chemical binding]; other site 1208660010111 Walker B motif; other site 1208660010112 arginine finger; other site 1208660010113 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1208660010114 Part of AAA domain; Region: AAA_19; pfam13245 1208660010115 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1208660010116 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1208660010117 probable DNA repair protein; Region: TIGR03623 1208660010118 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1208660010119 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1208660010120 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 1208660010121 putative substrate translocation pore; other site 1208660010122 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1208660010123 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1208660010124 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1208660010127 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1208660010128 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 1208660010129 active site 1208660010130 DNA binding site [nucleotide binding] 1208660010131 Int/Topo IB signature motif; other site 1208660010133 thiamine pyrophosphate protein; Validated; Region: PRK08199 1208660010134 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208660010135 PYR/PP interface [polypeptide binding]; other site 1208660010136 dimer interface [polypeptide binding]; other site 1208660010137 TPP binding site [chemical binding]; other site 1208660010138 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208660010139 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 1208660010140 TPP-binding site [chemical binding]; other site 1208660010141 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1208660010142 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208660010143 FAD binding site [chemical binding]; other site 1208660010144 substrate binding pocket [chemical binding]; other site 1208660010145 catalytic base [active] 1208660010146 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 1208660010147 putative active site [active] 1208660010148 putative catalytic site [active] 1208660010150 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208660010151 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208660010152 Walker A/P-loop; other site 1208660010153 ATP binding site [chemical binding]; other site 1208660010154 Q-loop/lid; other site 1208660010155 ABC transporter signature motif; other site 1208660010156 Walker B; other site 1208660010157 D-loop; other site 1208660010158 H-loop/switch region; other site 1208660010159 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1208660010160 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660010161 dimer interface [polypeptide binding]; other site 1208660010162 conserved gate region; other site 1208660010163 putative PBP binding loops; other site 1208660010164 ABC-ATPase subunit interface; other site 1208660010165 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 1208660010166 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1208660010167 substrate binding pocket [chemical binding]; other site 1208660010168 membrane-bound complex binding site; other site 1208660010169 hinge residues; other site 1208660010170 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1208660010171 agmatinase; Region: agmatinase; TIGR01230 1208660010172 oligomer interface [polypeptide binding]; other site 1208660010173 putative active site [active] 1208660010174 Mn binding site [ion binding]; other site 1208660010175 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660010176 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660010177 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660010178 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1208660010179 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 1208660010180 substrate binding pocket [chemical binding]; other site 1208660010181 membrane-bound complex binding site; other site 1208660010182 hinge residues; other site 1208660010183 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1208660010184 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1208660010185 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1208660010186 ATP-grasp domain; Region: ATP-grasp; pfam02222 1208660010187 AIR carboxylase; Region: AIRC; pfam00731 1208660010188 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 1208660010189 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 1208660010190 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1208660010191 ATP binding site [chemical binding]; other site 1208660010192 active site 1208660010193 substrate binding site [chemical binding]; other site 1208660010194 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1208660010195 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 1208660010196 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1208660010197 intersubunit interface [polypeptide binding]; other site 1208660010198 active site 1208660010199 zinc binding site [ion binding]; other site 1208660010200 Na+ binding site [ion binding]; other site 1208660010201 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1208660010202 MOSC domain; Region: MOSC; pfam03473 1208660010203 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1208660010204 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 1208660010205 DNA binding residues [nucleotide binding] 1208660010206 dimerization interface [polypeptide binding]; other site 1208660010207 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 1208660010208 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 1208660010209 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 1208660010210 formate dehydrogenase; Provisional; Region: PRK07574 1208660010211 NAD-dependent Formate Dehydrogenase (FDH); Region: FDH; cd05302 1208660010212 dimerization interface [polypeptide binding]; other site 1208660010213 ligand binding site [chemical binding]; other site 1208660010214 NAD binding site [chemical binding]; other site 1208660010215 catalytic site [active] 1208660010216 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1208660010217 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 1208660010218 rRNA binding site [nucleotide binding]; other site 1208660010219 predicted 30S ribosome binding site; other site 1208660010220 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1208660010221 Peptidase family M23; Region: Peptidase_M23; pfam01551 1208660010222 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 1208660010223 MPT binding site; other site 1208660010224 trimer interface [polypeptide binding]; other site 1208660010225 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1208660010226 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1208660010227 AzlC protein; Region: AzlC; pfam03591 1208660010228 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 1208660010229 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1208660010230 substrate binding site [polypeptide binding]; other site 1208660010231 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208660010232 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1208660010233 Coenzyme A binding pocket [chemical binding]; other site 1208660010234 DinB family; Region: DinB; cl17821 1208660010235 DinB superfamily; Region: DinB_2; pfam12867 1208660010236 glutathione S-transferase; Provisional; Region: PRK15113 1208660010237 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 1208660010238 C-terminal domain interface [polypeptide binding]; other site 1208660010239 GSH binding site (G-site) [chemical binding]; other site 1208660010240 dimer interface [polypeptide binding]; other site 1208660010241 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1208660010242 N-terminal domain interface [polypeptide binding]; other site 1208660010243 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 1208660010244 phosphate acetyltransferase; Provisional; Region: PRK11890 1208660010245 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 1208660010246 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1208660010247 propionate/acetate kinase; Provisional; Region: PRK12379 1208660010248 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 1208660010249 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1208660010250 NAD binding site [chemical binding]; other site 1208660010251 homotetramer interface [polypeptide binding]; other site 1208660010252 homodimer interface [polypeptide binding]; other site 1208660010253 substrate binding site [chemical binding]; other site 1208660010254 active site 1208660010255 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1208660010256 Phosphoglycerate kinase; Region: PGK; pfam00162 1208660010257 substrate binding site [chemical binding]; other site 1208660010258 hinge regions; other site 1208660010259 ADP binding site [chemical binding]; other site 1208660010260 catalytic site [active] 1208660010261 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1208660010262 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1208660010263 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1208660010264 transketolase; Reviewed; Region: PRK12753 1208660010265 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 1208660010266 TPP-binding site [chemical binding]; other site 1208660010267 dimer interface [polypeptide binding]; other site 1208660010268 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 1208660010269 PYR/PP interface [polypeptide binding]; other site 1208660010270 dimer interface [polypeptide binding]; other site 1208660010271 TPP binding site [chemical binding]; other site 1208660010272 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1208660010273 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1208660010274 RNA methyltransferase, RsmE family; Region: TIGR00046 1208660010275 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 1208660010276 putative RNAase interaction site [polypeptide binding]; other site 1208660010277 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1208660010278 active site 1208660010279 nucleophile elbow; other site 1208660010280 malic enzyme; Reviewed; Region: PRK12861 1208660010281 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1208660010282 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1208660010283 putative NAD(P) binding site [chemical binding]; other site 1208660010284 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1208660010286 aminotransferase; Validated; Region: PRK07337 1208660010287 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 1208660010288 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660010289 homodimer interface [polypeptide binding]; other site 1208660010290 catalytic residue [active] 1208660010291 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1208660010292 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 1208660010293 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1208660010294 catalytic residue [active] 1208660010295 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1208660010296 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1208660010297 siroheme synthase; Provisional; Region: cysG; PRK10637 1208660010298 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1208660010299 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 1208660010300 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1208660010301 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1208660010302 active site 1208660010303 SAM binding site [chemical binding]; other site 1208660010304 homodimer interface [polypeptide binding]; other site 1208660010305 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 1208660010306 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1208660010307 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1208660010308 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1208660010309 active site 1208660010310 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1208660010311 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1208660010312 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1208660010313 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1208660010314 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1208660010315 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1208660010316 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1208660010317 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1208660010318 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1208660010319 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 1208660010320 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1208660010321 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1208660010322 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1208660010323 Protein export membrane protein; Region: SecD_SecF; pfam02355 1208660010324 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 1208660010325 active site 1208660010326 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1208660010327 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1208660010328 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 1208660010329 FeS/SAM binding site; other site 1208660010330 TRAM domain; Region: TRAM; pfam01938 1208660010331 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1208660010332 PhoH-like protein; Region: PhoH; pfam02562 1208660010333 metal-binding heat shock protein; Provisional; Region: PRK00016 1208660010334 FOG: CBS domain [General function prediction only]; Region: COG0517 1208660010335 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 1208660010336 Transporter associated domain; Region: CorC_HlyC; smart01091 1208660010337 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1208660010338 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1208660010339 putative active site [active] 1208660010340 catalytic triad [active] 1208660010341 putative dimer interface [polypeptide binding]; other site 1208660010342 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 1208660010343 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1208660010344 active site 1208660010345 catalytic tetrad [active] 1208660010346 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208660010347 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660010348 DNA-binding site [nucleotide binding]; DNA binding site 1208660010349 FCD domain; Region: FCD; pfam07729 1208660010350 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1208660010351 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660010352 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1208660010353 L-aspartate oxidase; Provisional; Region: PRK06175 1208660010354 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 1208660010355 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208660010357 Isochorismatase family; Region: Isochorismatase; pfam00857 1208660010358 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 1208660010359 catalytic triad [active] 1208660010360 conserved cis-peptide bond; other site 1208660010361 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 1208660010362 phenylhydantoinase; Validated; Region: PRK08323 1208660010363 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 1208660010364 active site 1208660010365 tetramer interface [polypeptide binding]; other site 1208660010367 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1208660010368 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 1208660010369 tetramer interface [polypeptide binding]; other site 1208660010370 active site 1208660010371 Mg2+/Mn2+ binding site [ion binding]; other site 1208660010372 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660010373 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660010374 biotin synthase; Region: bioB; TIGR00433 1208660010375 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 1208660010376 FeS/SAM binding site; other site 1208660010377 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1208660010378 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 1208660010379 putative MFS family transporter protein; Provisional; Region: PRK03633 1208660010380 putative substrate translocation pore; other site 1208660010381 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 1208660010382 catalytic triad [active] 1208660010383 dimer interface [polypeptide binding]; other site 1208660010384 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1208660010385 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1208660010386 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1208660010387 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1208660010388 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1208660010389 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1208660010390 ligand binding site [chemical binding]; other site 1208660010391 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 1208660010392 trimer interface [polypeptide binding]; other site 1208660010393 dimer interface [polypeptide binding]; other site 1208660010394 putative active site [active] 1208660010395 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1208660010396 MoaE interaction surface [polypeptide binding]; other site 1208660010397 MoeB interaction surface [polypeptide binding]; other site 1208660010398 thiocarboxylated glycine; other site 1208660010399 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 1208660010400 MoaE homodimer interface [polypeptide binding]; other site 1208660010401 MoaD interaction [polypeptide binding]; other site 1208660010402 active site residues [active] 1208660010403 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 1208660010404 MPT binding site; other site 1208660010405 trimer interface [polypeptide binding]; other site 1208660010406 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1208660010407 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 1208660010408 dimer interface [polypeptide binding]; other site 1208660010409 putative functional site; other site 1208660010410 putative MPT binding site; other site 1208660010411 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1208660010412 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 1208660010413 FeS/SAM binding site; other site 1208660010414 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1208660010415 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1208660010416 PBP superfamily domain; Region: PBP_like; pfam12727 1208660010417 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 1208660010418 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 1208660010419 putative dimer interface [polypeptide binding]; other site 1208660010420 [2Fe-2S] cluster binding site [ion binding]; other site 1208660010421 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 1208660010422 putative dimer interface [polypeptide binding]; other site 1208660010423 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1208660010424 SLBB domain; Region: SLBB; pfam10531 1208660010425 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1208660010428 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 1208660010429 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1208660010430 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 1208660010431 S-adenosylmethionine binding site [chemical binding]; other site 1208660010432 Chromate transporter; Region: Chromate_transp; pfam02417 1208660010433 Chromate transporter; Region: Chromate_transp; pfam02417 1208660010434 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 1208660010435 Ligand Binding Site [chemical binding]; other site 1208660010436 threonine and homoserine efflux system; Provisional; Region: PRK10532 1208660010437 EamA-like transporter family; Region: EamA; pfam00892 1208660010438 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1208660010439 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 1208660010440 tetramer interface [polypeptide binding]; other site 1208660010441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660010442 catalytic residue [active] 1208660010443 metabolite-proton symporter; Region: 2A0106; TIGR00883 1208660010444 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 1208660010445 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1208660010446 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1208660010447 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1208660010448 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 1208660010449 D-pathway; other site 1208660010450 Putative ubiquinol binding site [chemical binding]; other site 1208660010451 Low-spin heme (heme b) binding site [chemical binding]; other site 1208660010452 Putative water exit pathway; other site 1208660010453 Binuclear center (heme o3/CuB) [ion binding]; other site 1208660010454 K-pathway; other site 1208660010455 Putative proton exit pathway; other site 1208660010456 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 1208660010457 Subunit I/III interface [polypeptide binding]; other site 1208660010458 Subunit III/IV interface [polypeptide binding]; other site 1208660010459 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 1208660010460 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 1208660010461 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1208660010462 putative NAD(P) binding site [chemical binding]; other site 1208660010463 putative active site [active] 1208660010465 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1208660010466 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1208660010467 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208660010468 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1208660010469 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1208660010470 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1208660010471 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1208660010472 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 1208660010473 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208660010474 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1208660010475 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1208660010476 Peptidase family M23; Region: Peptidase_M23; pfam01551 1208660010477 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1208660010478 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1208660010479 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1208660010480 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1208660010481 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 1208660010482 N-terminal plug; other site 1208660010483 ligand-binding site [chemical binding]; other site 1208660010484 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1208660010485 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 1208660010486 hypothetical protein; Provisional; Region: PRK05409 1208660010487 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 1208660010488 Predicted membrane protein [Function unknown]; Region: COG2259 1208660010489 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 1208660010490 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208660010491 putative substrate translocation pore; other site 1208660010492 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 1208660010493 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 1208660010494 dimerization interface [polypeptide binding]; other site 1208660010495 putative DNA binding site [nucleotide binding]; other site 1208660010496 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1208660010497 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 1208660010498 Subunit I/III interface [polypeptide binding]; other site 1208660010499 Subunit III/IV interface [polypeptide binding]; other site 1208660010500 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1208660010501 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 1208660010502 D-pathway; other site 1208660010503 Putative ubiquinol binding site [chemical binding]; other site 1208660010504 Low-spin heme (heme b) binding site [chemical binding]; other site 1208660010505 Putative water exit pathway; other site 1208660010506 Binuclear center (heme o3/CuB) [ion binding]; other site 1208660010507 K-pathway; other site 1208660010508 Putative proton exit pathway; other site 1208660010509 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1208660010510 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1208660010511 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1208660010512 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1208660010513 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 1208660010514 active site 1208660010515 phosphorylation site [posttranslational modification] 1208660010516 intermolecular recognition site; other site 1208660010517 dimerization interface [polypeptide binding]; other site 1208660010518 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1208660010519 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1208660010520 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 1208660010521 ATP binding site [chemical binding]; other site 1208660010522 G-X-G motif; other site 1208660010524 Pirin-related protein [General function prediction only]; Region: COG1741 1208660010525 Pirin; Region: Pirin; pfam02678 1208660010526 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1208660010527 HutD; Region: HutD; pfam05962 1208660010528 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660010529 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660010530 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1208660010531 dimerization interface [polypeptide binding]; other site 1208660010533 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660010534 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660010535 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660010536 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660010537 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 1208660010538 dimerization interface [polypeptide binding]; other site 1208660010539 substrate binding pocket [chemical binding]; other site 1208660010540 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660010541 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 1208660010542 active site 2 [active] 1208660010543 active site 1 [active] 1208660010544 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208660010545 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1208660010546 active site 1208660010547 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 1208660010548 putative DNA binding site [nucleotide binding]; other site 1208660010549 putative Zn2+ binding site [ion binding]; other site 1208660010550 threonine dehydratase; Reviewed; Region: PRK09224 1208660010551 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 1208660010552 tetramer interface [polypeptide binding]; other site 1208660010553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660010554 catalytic residue [active] 1208660010555 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1208660010556 putative Ile/Val binding site [chemical binding]; other site 1208660010557 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1208660010558 putative Ile/Val binding site [chemical binding]; other site 1208660010559 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1208660010560 SlyX; Region: SlyX; pfam04102 1208660010561 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1208660010562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1208660010564 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1208660010565 Helix-turn-helix domain; Region: HTH_18; pfam12833 1208660010566 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208660010567 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208660010568 EamA-like transporter family; Region: EamA; pfam00892 1208660010569 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1208660010570 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660010571 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 1208660010572 dimerization interface [polypeptide binding]; other site 1208660010573 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 1208660010574 FMN binding site [chemical binding]; other site 1208660010575 substrate binding site [chemical binding]; other site 1208660010576 putative catalytic residue [active] 1208660010577 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660010578 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660010579 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1208660010580 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1208660010581 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660010582 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1208660010583 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 1208660010584 active site 1208660010585 purine riboside binding site [chemical binding]; other site 1208660010587 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660010588 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660010589 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 1208660010590 putative dimerization interface [polypeptide binding]; other site 1208660010592 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1208660010593 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 1208660010594 putative dimer interface [polypeptide binding]; other site 1208660010595 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1208660010596 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1208660010597 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 1208660010598 Walker A motif; other site 1208660010599 ATP binding site [chemical binding]; other site 1208660010600 Walker B motif; other site 1208660010601 arginine finger; other site 1208660010602 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1208660010603 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1208660010604 EF-hand domain pair; Region: EF_hand_5; pfam13499 1208660010605 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 1208660010606 Ca2+ binding site [ion binding]; other site 1208660010610 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 1208660010611 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660010612 DNA-binding site [nucleotide binding]; DNA binding site 1208660010613 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 1208660010614 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660010615 homodimer interface [polypeptide binding]; other site 1208660010616 catalytic residue [active] 1208660010617 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1208660010618 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1208660010619 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1208660010620 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1208660010621 putative active site [active] 1208660010622 putative metal binding site [ion binding]; other site 1208660010623 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 1208660010624 putative dimer interface [polypeptide binding]; other site 1208660010625 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208660010626 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1208660010627 endonuclease III; Region: ENDO3c; smart00478 1208660010628 minor groove reading motif; other site 1208660010629 helix-hairpin-helix signature motif; other site 1208660010630 substrate binding pocket [chemical binding]; other site 1208660010631 active site 1208660010632 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1208660010633 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1208660010634 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1208660010635 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1208660010636 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 1208660010637 DNA binding site [nucleotide binding] 1208660010638 active site 1208660010639 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; cl17606 1208660010641 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 1208660010642 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 1208660010643 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1208660010644 putative catalytic residue [active] 1208660010645 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1208660010646 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1208660010647 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1208660010648 DctM-like transporters; Region: DctM; pfam06808 1208660010649 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1208660010650 putative amidase; Provisional; Region: PRK06169 1208660010651 Amidase; Region: Amidase; cl11426 1208660010652 aminoglycoside resistance protein; Provisional; Region: PRK13746 1208660010653 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1208660010654 active site 1208660010655 NTP binding site [chemical binding]; other site 1208660010656 metal binding triad [ion binding]; metal-binding site 1208660010657 antibiotic binding site [chemical binding]; other site 1208660010658 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 1208660010661 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660010662 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660010663 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 1208660010664 putative dimerization interface [polypeptide binding]; other site 1208660010665 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208660010666 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 1208660010667 substrate binding site [chemical binding]; other site 1208660010668 oxyanion hole (OAH) forming residues; other site 1208660010669 trimer interface [polypeptide binding]; other site 1208660010670 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660010671 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660010672 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1208660010673 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208660010674 NAD(P) binding site [chemical binding]; other site 1208660010675 catalytic residues [active] 1208660010676 hypothetical protein; Provisional; Region: PRK07064 1208660010677 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208660010678 PYR/PP interface [polypeptide binding]; other site 1208660010679 dimer interface [polypeptide binding]; other site 1208660010680 TPP binding site [chemical binding]; other site 1208660010681 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208660010682 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 1208660010683 TPP-binding site [chemical binding]; other site 1208660010684 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660010685 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1208660010686 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1208660010687 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1208660010688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660010689 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660010690 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 1208660010691 putative effector binding pocket; other site 1208660010692 putative dimerization interface [polypeptide binding]; other site 1208660010693 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1208660010694 dimer interface [polypeptide binding]; other site 1208660010695 putative CheW interface [polypeptide binding]; other site 1208660010696 Nucleotidyltransferase domain; Region: NTP_transf_2; pfam01909 1208660010699 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660010700 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660010701 RES domain; Region: RES; pfam08808 1208660010702 Abortive infection C-terminus; Region: Abi_C; pfam14355 1208660010703 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 1208660010704 active site 1208660010705 NTP binding site [chemical binding]; other site 1208660010706 metal binding triad [ion binding]; metal-binding site 1208660010707 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1208660010708 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 1208660010709 active site 1208660010710 nucleophile elbow; other site 1208660010711 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660010712 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660010713 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 1208660010714 putative effector binding pocket; other site 1208660010715 dimerization interface [polypeptide binding]; other site 1208660010716 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 1208660010717 NADP binding site [chemical binding]; other site 1208660010718 active site 1208660010719 regulatory binding site [polypeptide binding]; other site 1208660010720 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660010721 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660010722 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1208660010723 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1208660010724 classical (c) SDRs; Region: SDR_c; cd05233 1208660010725 NAD(P) binding site [chemical binding]; other site 1208660010726 active site 1208660010727 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208660010728 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208660010729 active site 1208660010730 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660010731 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660010732 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660010733 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660010734 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660010735 arsenical pump membrane protein; Provisional; Region: PRK15445 1208660010736 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 1208660010737 transmembrane helices; other site 1208660010738 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 1208660010739 putative DNA binding site [nucleotide binding]; other site 1208660010741 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1208660010742 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 1208660010743 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1208660010744 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1208660010745 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 1208660010746 Walker A/P-loop; other site 1208660010747 ATP binding site [chemical binding]; other site 1208660010748 Q-loop/lid; other site 1208660010749 ABC transporter signature motif; other site 1208660010750 Walker B; other site 1208660010751 D-loop; other site 1208660010752 H-loop/switch region; other site 1208660010753 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1208660010754 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1208660010755 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208660010756 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1208660010757 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 1208660010758 DNA binding residues [nucleotide binding] 1208660010759 dimerization interface [polypeptide binding]; other site 1208660010760 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1208660010761 Putative Ig domain; Region: He_PIG; pfam05345 1208660010762 VCBS repeat; Region: VCBS_repeat; TIGR01965 1208660010763 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1208660010764 Putative Ig domain; Region: He_PIG; pfam05345 1208660010765 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 1208660010766 metal ion-dependent adhesion site (MIDAS); other site 1208660010767 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 1208660010768 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 1208660010769 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208660010770 metal binding site [ion binding]; metal-binding site 1208660010771 active site 1208660010772 I-site; other site 1208660010773 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 1208660010774 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 1208660010775 Isochorismatase family; Region: Isochorismatase; pfam00857 1208660010776 catalytic triad [active] 1208660010777 dimer interface [polypeptide binding]; other site 1208660010778 conserved cis-peptide bond; other site 1208660010779 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1208660010780 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 1208660010781 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660010782 homodimer interface [polypeptide binding]; other site 1208660010783 catalytic residue [active] 1208660010784 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1208660010785 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1208660010786 Zn2+ binding site [ion binding]; other site 1208660010787 Mg2+ binding site [ion binding]; other site 1208660010788 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 1208660010789 metal-binding site [ion binding] 1208660010790 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1208660010791 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1208660010792 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1208660010793 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1208660010794 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1208660010795 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1208660010796 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1208660010797 NAD(P) binding site [chemical binding]; other site 1208660010798 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 1208660010799 CoenzymeA binding site [chemical binding]; other site 1208660010800 subunit interaction site [polypeptide binding]; other site 1208660010801 PHB binding site; other site 1208660010802 NMT1/THI5 like; Region: NMT1; pfam09084 1208660010803 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 1208660010804 substrate binding pocket [chemical binding]; other site 1208660010805 membrane-bound complex binding site; other site 1208660010806 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208660010807 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208660010808 Walker A/P-loop; other site 1208660010809 ATP binding site [chemical binding]; other site 1208660010810 Q-loop/lid; other site 1208660010811 ABC transporter signature motif; other site 1208660010812 Walker B; other site 1208660010813 D-loop; other site 1208660010814 H-loop/switch region; other site 1208660010815 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208660010816 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660010817 dimer interface [polypeptide binding]; other site 1208660010818 conserved gate region; other site 1208660010819 putative PBP binding loops; other site 1208660010820 ABC-ATPase subunit interface; other site 1208660010821 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 1208660010822 putative active site [active] 1208660010823 Zn binding site [ion binding]; other site 1208660010824 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1208660010825 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208660010826 acyl-activating enzyme (AAE) consensus motif; other site 1208660010827 AMP binding site [chemical binding]; other site 1208660010828 active site 1208660010829 CoA binding site [chemical binding]; other site 1208660010830 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1208660010831 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208660010832 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 1208660010833 putative DNA binding site [nucleotide binding]; other site 1208660010834 putative Zn2+ binding site [ion binding]; other site 1208660010835 AsnC family; Region: AsnC_trans_reg; pfam01037 1208660010837 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 1208660010838 Lumazine binding domain; Region: Lum_binding; pfam00677 1208660010839 Lumazine binding domain; Region: Lum_binding; pfam00677 1208660010840 putative cyanate transporter; Provisional; Region: cynX; PRK09705 1208660010841 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 1208660010842 nucleoside/Zn binding site; other site 1208660010843 dimer interface [polypeptide binding]; other site 1208660010844 catalytic motif [active] 1208660010845 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1208660010846 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 1208660010847 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1208660010849 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1208660010850 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 1208660010851 active site 1208660010852 FMN binding site [chemical binding]; other site 1208660010853 substrate binding site [chemical binding]; other site 1208660010854 homotetramer interface [polypeptide binding]; other site 1208660010855 catalytic residue [active] 1208660010856 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660010857 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208660010858 Walker A/P-loop; other site 1208660010859 ATP binding site [chemical binding]; other site 1208660010860 Q-loop/lid; other site 1208660010861 ABC transporter signature motif; other site 1208660010862 Walker B; other site 1208660010863 D-loop; other site 1208660010864 H-loop/switch region; other site 1208660010865 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208660010866 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208660010867 Walker A/P-loop; other site 1208660010868 ATP binding site [chemical binding]; other site 1208660010869 Q-loop/lid; other site 1208660010870 ABC transporter signature motif; other site 1208660010871 Walker B; other site 1208660010872 D-loop; other site 1208660010873 H-loop/switch region; other site 1208660010874 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 1208660010875 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208660010876 TM-ABC transporter signature motif; other site 1208660010877 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 1208660010878 TM-ABC transporter signature motif; other site 1208660010879 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 1208660010880 homotrimer interaction site [polypeptide binding]; other site 1208660010881 putative active site [active] 1208660010883 (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 1208660010884 active site 1208660010885 catalytic site [active] 1208660010887 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660010888 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208660010889 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660010890 short chain dehydrogenase; Provisional; Region: PRK06125 1208660010891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660010892 NAD(P) binding site [chemical binding]; other site 1208660010893 active site 1208660010894 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 1208660010895 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1208660010896 putative active site [active] 1208660010897 putative catalytic site [active] 1208660010898 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208660010899 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208660010900 Walker A/P-loop; other site 1208660010901 ATP binding site [chemical binding]; other site 1208660010902 Q-loop/lid; other site 1208660010903 ABC transporter signature motif; other site 1208660010904 Walker B; other site 1208660010905 D-loop; other site 1208660010906 H-loop/switch region; other site 1208660010908 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1208660010909 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 1208660010910 substrate binding pocket [chemical binding]; other site 1208660010911 membrane-bound complex binding site; other site 1208660010912 enoyl-CoA hydratase; Provisional; Region: PRK06127 1208660010913 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 1208660010914 substrate binding site [chemical binding]; other site 1208660010915 oxyanion hole (OAH) forming residues; other site 1208660010916 trimer interface [polypeptide binding]; other site 1208660010917 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660010918 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660010919 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660010920 DNA-binding site [nucleotide binding]; DNA binding site 1208660010921 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1208660010922 FCD domain; Region: FCD; pfam07729 1208660010923 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1208660010924 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1208660010925 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1208660010926 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 1208660010927 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 1208660010928 homodimer interface [polypeptide binding]; other site 1208660010929 substrate-cofactor binding pocket; other site 1208660010930 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660010931 catalytic residue [active] 1208660010935 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_11; cd12175 1208660010936 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1208660010937 putative ligand binding site [chemical binding]; other site 1208660010938 putative NAD binding site [chemical binding]; other site 1208660010939 catalytic site [active] 1208660010940 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1208660010941 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1208660010942 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660010943 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1208660010944 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 1208660010945 tetramer interface [polypeptide binding]; other site 1208660010946 active site 1208660010947 Mg2+/Mn2+ binding site [ion binding]; other site 1208660010948 aspartate aminotransferase; Provisional; Region: PRK05764 1208660010949 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 1208660010950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660010951 homodimer interface [polypeptide binding]; other site 1208660010952 catalytic residue [active] 1208660010954 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1208660010955 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1208660010956 Walker A/P-loop; other site 1208660010957 ATP binding site [chemical binding]; other site 1208660010958 Q-loop/lid; other site 1208660010959 ABC transporter signature motif; other site 1208660010960 Walker B; other site 1208660010961 D-loop; other site 1208660010962 H-loop/switch region; other site 1208660010963 TOBE domain; Region: TOBE_2; pfam08402 1208660010964 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1208660010965 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1208660010966 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208660010967 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660010968 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 1208660010969 dimerization interface [polypeptide binding]; other site 1208660010970 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660010971 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660010972 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660010973 enoyl-CoA hydratase; Provisional; Region: PRK06688 1208660010974 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 1208660010975 substrate binding site [chemical binding]; other site 1208660010976 oxyanion hole (OAH) forming residues; other site 1208660010977 trimer interface [polypeptide binding]; other site 1208660010978 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660010979 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660010980 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 1208660010981 putative dimerization interface [polypeptide binding]; other site 1208660010982 putative substrate binding pocket [chemical binding]; other site 1208660010983 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208660010984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660010985 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 1208660010986 putative dimerization interface [polypeptide binding]; other site 1208660010987 putative substrate binding pocket [chemical binding]; other site 1208660010989 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1208660010990 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1208660010991 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1208660010992 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1208660010993 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660010994 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208660010995 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 1208660010996 substrate binding site [chemical binding]; other site 1208660010997 oxyanion hole (OAH) forming residues; other site 1208660010998 trimer interface [polypeptide binding]; other site 1208660010999 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660011000 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660011001 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660011002 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 1208660011003 putative dimerization interface [polypeptide binding]; other site 1208660011004 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660011005 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1208660011006 Sulfatase; Region: Sulfatase; pfam00884 1208660011007 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660011008 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660011009 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 1208660011010 dimerization interface [polypeptide binding]; other site 1208660011011 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1208660011012 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1208660011013 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1208660011014 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660011015 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660011016 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 1208660011017 putative dimerization interface [polypeptide binding]; other site 1208660011019 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208660011020 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660011021 dimer interface [polypeptide binding]; other site 1208660011022 conserved gate region; other site 1208660011023 putative PBP binding loops; other site 1208660011024 ABC-ATPase subunit interface; other site 1208660011025 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 1208660011026 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1208660011027 isopropylmalate isomerase large subunit; Provisional; Region: PRK12466 1208660011028 substrate binding site [chemical binding]; other site 1208660011029 ligand binding site [chemical binding]; other site 1208660011030 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1208660011031 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 1208660011032 substrate binding site [chemical binding]; other site 1208660011033 tartrate dehydrogenase; Region: TTC; TIGR02089 1208660011034 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1208660011036 ornithine cyclodeaminase; Validated; Region: PRK06141 1208660011037 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1208660011038 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660011039 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208660011040 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 1208660011041 dimerization interface [polypeptide binding]; other site 1208660011042 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1208660011043 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1208660011044 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1208660011045 Sulfatase; Region: Sulfatase; cl17466 1208660011046 Sulfatase; Region: Sulfatase; cl17466 1208660011047 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 1208660011048 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1208660011049 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1208660011050 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660011051 dimer interface [polypeptide binding]; other site 1208660011052 conserved gate region; other site 1208660011053 putative PBP binding loops; other site 1208660011054 ABC-ATPase subunit interface; other site 1208660011055 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208660011056 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660011057 dimer interface [polypeptide binding]; other site 1208660011058 conserved gate region; other site 1208660011059 putative PBP binding loops; other site 1208660011060 ABC-ATPase subunit interface; other site 1208660011061 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1208660011062 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660011063 Walker A/P-loop; other site 1208660011064 ATP binding site [chemical binding]; other site 1208660011065 Q-loop/lid; other site 1208660011066 ABC transporter signature motif; other site 1208660011067 Walker B; other site 1208660011068 D-loop; other site 1208660011069 H-loop/switch region; other site 1208660011070 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208660011071 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660011072 Walker A/P-loop; other site 1208660011073 ATP binding site [chemical binding]; other site 1208660011074 Q-loop/lid; other site 1208660011075 ABC transporter signature motif; other site 1208660011076 Walker B; other site 1208660011077 D-loop; other site 1208660011078 H-loop/switch region; other site 1208660011079 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1208660011080 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660011081 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660011082 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 1208660011083 putative dimerization interface [polypeptide binding]; other site 1208660011084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208660011085 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1208660011086 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208660011087 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208660011088 acyl-activating enzyme (AAE) consensus motif; other site 1208660011089 AMP binding site [chemical binding]; other site 1208660011090 active site 1208660011091 CoA binding site [chemical binding]; other site 1208660011092 enoyl-CoA hydratase; Provisional; Region: PRK06494 1208660011093 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 1208660011094 substrate binding site [chemical binding]; other site 1208660011095 oxyanion hole (OAH) forming residues; other site 1208660011096 trimer interface [polypeptide binding]; other site 1208660011097 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1208660011098 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660011099 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 1208660011100 putative dimerization interface [polypeptide binding]; other site 1208660011101 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1208660011102 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1208660011103 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1208660011104 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660011105 dimer interface [polypeptide binding]; other site 1208660011106 conserved gate region; other site 1208660011107 putative PBP binding loops; other site 1208660011108 ABC-ATPase subunit interface; other site 1208660011109 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660011110 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660011111 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1208660011112 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660011113 ABC-ATPase subunit interface; other site 1208660011114 putative PBP binding loops; other site 1208660011115 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1208660011116 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660011117 Walker A/P-loop; other site 1208660011118 ATP binding site [chemical binding]; other site 1208660011119 Q-loop/lid; other site 1208660011120 ABC transporter signature motif; other site 1208660011121 Walker B; other site 1208660011122 D-loop; other site 1208660011123 H-loop/switch region; other site 1208660011124 TOBE domain; Region: TOBE_2; pfam08402 1208660011126 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208660011127 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1208660011128 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1208660011129 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1208660011130 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208660011131 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208660011132 metal binding site [ion binding]; metal-binding site 1208660011133 active site 1208660011134 I-site; other site 1208660011135 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660011136 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660011137 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 1208660011138 dimerization interface [polypeptide binding]; other site 1208660011139 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660011140 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1208660011141 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1208660011142 MlrC C-terminus; Region: MlrC_C; pfam07171 1208660011143 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1208660011144 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660011146 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1208660011147 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660011148 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 1208660011149 putative dimerization interface [polypeptide binding]; other site 1208660011150 putative substrate binding pocket [chemical binding]; other site 1208660011151 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660011152 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660011153 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660011154 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208660011155 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208660011156 active site 1208660011157 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1208660011158 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 1208660011159 Ligand Binding Site [chemical binding]; other site 1208660011160 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1208660011161 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1208660011162 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1208660011163 L-lactate permease; Region: Lactate_perm; cl00701 1208660011164 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 1208660011165 Isochorismatase family; Region: Isochorismatase; pfam00857 1208660011166 catalytic triad [active] 1208660011167 dimer interface [polypeptide binding]; other site 1208660011168 conserved cis-peptide bond; other site 1208660011169 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1208660011170 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1208660011171 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1208660011172 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660011173 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1208660011174 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660011175 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660011176 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 1208660011177 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1208660011178 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660011179 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660011180 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 1208660011181 dimerization interface [polypeptide binding]; other site 1208660011182 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660011183 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 1208660011184 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1208660011185 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1208660011186 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 1208660011187 oligomerisation interface [polypeptide binding]; other site 1208660011188 mobile loop; other site 1208660011189 roof hairpin; other site 1208660011190 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1208660011191 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 1208660011192 ring oligomerisation interface [polypeptide binding]; other site 1208660011193 ATP/Mg binding site [chemical binding]; other site 1208660011194 stacking interactions; other site 1208660011195 hinge regions; other site 1208660011196 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660011197 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660011202 LysR family transcriptional regulator; Provisional; Region: PRK14997 1208660011203 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660011204 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 1208660011205 putative effector binding pocket; other site 1208660011206 putative dimerization interface [polypeptide binding]; other site 1208660011207 Tir chaperone protein (CesT) family; Region: CesT; cl08444 1208660011208 Protein of unknown function (DUF3120); Region: DUF3220; pfam11516 1208660011209 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1208660011210 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1208660011211 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 1208660011212 dimer interface [polypeptide binding]; other site 1208660011213 phosphorylation site [posttranslational modification] 1208660011214 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 1208660011215 Mg2+ binding site [ion binding]; other site 1208660011216 G-X-G motif; other site 1208660011217 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1208660011218 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 1208660011219 active site 1208660011220 phosphorylation site [posttranslational modification] 1208660011221 intermolecular recognition site; other site 1208660011222 dimerization interface [polypeptide binding]; other site 1208660011223 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 1208660011224 DNA binding site [nucleotide binding] 1208660011225 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 1208660011226 putative active site [active] 1208660011227 Ap4A binding site [chemical binding]; other site 1208660011228 nudix motif; other site 1208660011229 putative metal binding site [ion binding]; other site 1208660011230 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1208660011231 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 1208660011232 dimer interface [polypeptide binding]; other site 1208660011233 motif 1; other site 1208660011234 active site 1208660011235 motif 2; other site 1208660011236 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 1208660011237 putative deacylase active site [active] 1208660011238 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 1208660011239 active site 1208660011240 motif 3; other site 1208660011241 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 1208660011242 anticodon binding site; other site 1208660011243 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 1208660011244 active site 1208660011245 TolQ protein; Region: tolQ; TIGR02796 1208660011246 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1208660011247 TolR protein; Region: tolR; TIGR02801 1208660011248 TolA protein; Region: tolA_full; TIGR02794 1208660011249 TonB C terminal; Region: TonB_2; pfam13103 1208660011250 translocation protein TolB; Provisional; Region: tolB; PRK02889 1208660011251 TolB amino-terminal domain; Region: TolB_N; pfam04052 1208660011252 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1208660011253 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1208660011254 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1208660011255 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1208660011256 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1208660011257 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1208660011258 ligand binding site [chemical binding]; other site 1208660011259 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1208660011260 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 1208660011261 binding surface 1208660011262 TPR motif; other site 1208660011263 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1208660011264 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 1208660011265 ABC-ATPase subunit interface; other site 1208660011266 dimer interface [polypeptide binding]; other site 1208660011267 putative PBP binding regions; other site 1208660011268 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1208660011269 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1208660011270 Walker A/P-loop; other site 1208660011271 ATP binding site [chemical binding]; other site 1208660011272 Q-loop/lid; other site 1208660011273 ABC transporter signature motif; other site 1208660011274 Walker B; other site 1208660011275 D-loop; other site 1208660011276 H-loop/switch region; other site 1208660011278 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1208660011279 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1208660011280 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1208660011281 MarR family; Region: MarR_2; pfam12802 1208660011282 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1208660011283 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1208660011284 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 1208660011285 putative deacylase active site [active] 1208660011286 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1208660011287 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1208660011288 catalytic site [active] 1208660011289 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660011290 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 1208660011291 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 1208660011292 acyl-activating enzyme (AAE) consensus motif; other site 1208660011293 putative AMP binding site [chemical binding]; other site 1208660011294 putative active site [active] 1208660011295 putative CoA binding site [chemical binding]; other site 1208660011297 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208660011298 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1208660011299 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208660011300 active site 1208660011301 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1208660011302 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660011303 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 1208660011304 dimerization interface [polypeptide binding]; other site 1208660011305 substrate binding pocket [chemical binding]; other site 1208660011306 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660011307 enoyl-CoA hydratase; Provisional; Region: PRK09245 1208660011308 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 1208660011309 substrate binding site [chemical binding]; other site 1208660011310 oxyanion hole (OAH) forming residues; other site 1208660011311 trimer interface [polypeptide binding]; other site 1208660011312 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660011313 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660011314 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1208660011315 MgtC family; Region: MgtC; pfam02308 1208660011316 elongation factor G; Reviewed; Region: PRK00007 1208660011317 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1208660011318 G1 box; other site 1208660011319 putative GEF interaction site [polypeptide binding]; other site 1208660011320 GTP/Mg2+ binding site [chemical binding]; other site 1208660011321 Switch I region; other site 1208660011322 G2 box; other site 1208660011323 G3 box; other site 1208660011324 Switch II region; other site 1208660011325 G4 box; other site 1208660011326 G5 box; other site 1208660011327 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 1208660011328 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 1208660011329 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 1208660011330 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660011331 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660011332 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 1208660011333 Ligand Binding Site [chemical binding]; other site 1208660011334 Putative phosphatase (DUF442); Region: DUF442; cl17385 1208660011335 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 1208660011336 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660011337 DNA-binding site [nucleotide binding]; DNA binding site 1208660011338 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 1208660011339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660011340 homodimer interface [polypeptide binding]; other site 1208660011341 catalytic residue [active] 1208660011342 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208660011343 EamA-like transporter family; Region: EamA; pfam00892 1208660011344 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1208660011345 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1208660011346 Predicted membrane protein [Function unknown]; Region: COG4125 1208660011347 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1208660011348 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1208660011349 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 1208660011350 putative active site [active] 1208660011351 YdjC motif; other site 1208660011352 Mg binding site [ion binding]; other site 1208660011353 putative homodimer interface [polypeptide binding]; other site 1208660011354 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1208660011355 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1208660011356 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1208660011357 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1208660011358 Ligand binding site; other site 1208660011359 Putative Catalytic site; other site 1208660011360 DXD motif; other site 1208660011361 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 1208660011362 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1208660011363 Short chain fatty acid transporter; Region: SCFA_trans; cl17380 1208660011364 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1208660011365 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 1208660011366 active site 1208660011367 catalytic site [active] 1208660011368 substrate binding site [chemical binding]; other site 1208660011369 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1208660011370 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1208660011371 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1208660011372 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208660011373 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1208660011374 RNA/DNA hybrid binding site [nucleotide binding]; other site 1208660011375 active site 1208660011376 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1208660011377 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1208660011378 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 1208660011379 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1208660011380 catalytic residue [active] 1208660011381 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1208660011382 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1208660011383 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1208660011384 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 1208660011385 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1208660011386 NAD binding site [chemical binding]; other site 1208660011387 homotetramer interface [polypeptide binding]; other site 1208660011388 homodimer interface [polypeptide binding]; other site 1208660011389 substrate binding site [chemical binding]; other site 1208660011390 active site 1208660011391 OsmC-like protein; Region: OsmC; pfam02566 1208660011392 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1208660011393 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1208660011394 putative metal binding site [ion binding]; other site 1208660011395 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660011396 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 1208660011397 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 1208660011398 dimerization interface [polypeptide binding]; other site 1208660011399 active site 1208660011400 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 1208660011401 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 1208660011402 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1208660011403 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 1208660011404 alpha subunit interface [polypeptide binding]; other site 1208660011405 active site 1208660011406 substrate binding site [chemical binding]; other site 1208660011407 Fe binding site [ion binding]; other site 1208660011408 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 1208660011409 TM-ABC transporter signature motif; other site 1208660011410 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660011411 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 1208660011412 TM-ABC transporter signature motif; other site 1208660011414 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 1208660011415 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208660011416 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 1208660011417 putative ligand binding site [chemical binding]; other site 1208660011418 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660011419 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660011420 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 1208660011421 putative substrate binding pocket [chemical binding]; other site 1208660011422 dimerization interface [polypeptide binding]; other site 1208660011423 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1208660011424 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1208660011425 NAD(P) binding site [chemical binding]; other site 1208660011427 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1208660011428 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1208660011429 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 1208660011430 putative NADH binding site [chemical binding]; other site 1208660011431 putative active site [active] 1208660011432 nudix motif; other site 1208660011433 putative metal binding site [ion binding]; other site 1208660011434 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660011435 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660011436 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660011437 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660011438 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1208660011439 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1208660011440 NAD(P) binding site [chemical binding]; other site 1208660011441 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1208660011442 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660011444 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208660011445 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208660011446 Walker A/P-loop; other site 1208660011447 ATP binding site [chemical binding]; other site 1208660011448 Q-loop/lid; other site 1208660011449 ABC transporter signature motif; other site 1208660011450 Walker B; other site 1208660011451 D-loop; other site 1208660011452 H-loop/switch region; other site 1208660011453 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 1208660011454 NMT1/THI5 like; Region: NMT1; pfam09084 1208660011455 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208660011456 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660011457 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660011458 ABC-ATPase subunit interface; other site 1208660011459 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208660011460 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660011461 DNA-binding site [nucleotide binding]; DNA binding site 1208660011462 UTRA domain; Region: UTRA; cl17743 1208660011463 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 1208660011464 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1208660011465 membrane-bound complex binding site; other site 1208660011466 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660011467 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208660011468 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660011469 DNA-binding site [nucleotide binding]; DNA binding site 1208660011470 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 1208660011471 gating phenylalanine in ion channel; other site 1208660011472 Sulfatase; Region: Sulfatase; cl17466 1208660011473 choline dehydrogenase; Validated; Region: PRK02106 1208660011474 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1208660011475 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1208660011476 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 1208660011477 FMN-binding pocket [chemical binding]; other site 1208660011478 flavin binding motif; other site 1208660011479 phosphate binding motif [ion binding]; other site 1208660011480 beta-alpha-beta structure motif; other site 1208660011481 NAD binding pocket [chemical binding]; other site 1208660011482 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 1208660011483 catalytic loop [active] 1208660011484 iron binding site [ion binding]; other site 1208660011486 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208660011487 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1208660011488 tetramerization interface [polypeptide binding]; other site 1208660011489 NAD(P) binding site [chemical binding]; other site 1208660011490 catalytic residues [active] 1208660011491 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 1208660011492 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1208660011493 UreF; Region: UreF; pfam01730 1208660011494 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 1208660011495 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 1208660011496 dimer interface [polypeptide binding]; other site 1208660011497 catalytic residues [active] 1208660011498 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1208660011499 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 1208660011500 subunit interactions [polypeptide binding]; other site 1208660011501 active site 1208660011502 flap region; other site 1208660011503 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 1208660011504 gamma-beta subunit interface [polypeptide binding]; other site 1208660011505 alpha-beta subunit interface [polypeptide binding]; other site 1208660011506 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 1208660011507 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 1208660011508 alpha-gamma subunit interface [polypeptide binding]; other site 1208660011509 beta-gamma subunit interface [polypeptide binding]; other site 1208660011510 UreD urease accessory protein; Region: UreD; cl00530 1208660011511 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1208660011512 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1208660011513 DNA binding residues [nucleotide binding] 1208660011515 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1208660011516 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1208660011517 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660011518 DNA-binding site [nucleotide binding]; DNA binding site 1208660011519 UTRA domain; Region: UTRA; pfam07702 1208660011520 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 1208660011521 dimer interface [polypeptide binding]; other site 1208660011522 Methylaspartate ammonia-lyase C-terminus; Region: MAAL_C; pfam07476 1208660011523 active site 1208660011524 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660011525 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1208660011526 D-galactonate transporter; Region: 2A0114; TIGR00893 1208660011528 hypothetical protein; Provisional; Region: PRK05325 1208660011529 PrkA family serine protein kinase; Provisional; Region: PRK15455 1208660011530 AAA ATPase domain; Region: AAA_16; pfam13191 1208660011531 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1208660011532 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1208660011533 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 1208660011534 catalytic motif [active] 1208660011535 Zn binding site [ion binding]; other site 1208660011536 RibD C-terminal domain; Region: RibD_C; cl17279 1208660011537 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 1208660011538 catalytic triad [active] 1208660011539 conserved cis-peptide bond; other site 1208660011541 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1208660011542 ATP cone domain; Region: ATP-cone; pfam03477 1208660011543 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1208660011544 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 1208660011545 dimer interface [polypeptide binding]; other site 1208660011546 active site 1208660011547 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1208660011548 folate binding site [chemical binding]; other site 1208660011549 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1208660011550 substrate binding site [chemical binding]; other site 1208660011551 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1208660011552 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1208660011553 active site 1208660011554 HIGH motif; other site 1208660011555 dimer interface [polypeptide binding]; other site 1208660011556 KMSKS motif; other site 1208660011557 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 1208660011558 RNA binding surface [nucleotide binding]; other site 1208660011559 putative peptidase; Provisional; Region: PRK11649 1208660011560 Peptidase family M23; Region: Peptidase_M23; pfam01551 1208660011561 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1208660011562 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1208660011563 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1208660011564 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1208660011565 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1208660011566 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 1208660011567 23S rRNA interface [nucleotide binding]; other site 1208660011568 L3 interface [polypeptide binding]; other site 1208660011569 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1208660011570 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1208660011571 peptidase PmbA; Provisional; Region: PRK11040 1208660011572 hypothetical protein; Provisional; Region: PRK05255 1208660011573 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1208660011574 putative hydrolase; Provisional; Region: PRK11460 1208660011575 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 1208660011576 NMT1/THI5 like; Region: NMT1; pfam09084 1208660011577 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208660011578 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208660011579 Walker A/P-loop; other site 1208660011580 ATP binding site [chemical binding]; other site 1208660011581 Q-loop/lid; other site 1208660011582 ABC transporter signature motif; other site 1208660011583 Walker B; other site 1208660011584 D-loop; other site 1208660011585 H-loop/switch region; other site 1208660011586 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208660011587 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660011588 dimer interface [polypeptide binding]; other site 1208660011589 conserved gate region; other site 1208660011590 putative PBP binding loops; other site 1208660011591 ABC-ATPase subunit interface; other site 1208660011592 Isochorismatase family; Region: Isochorismatase; pfam00857 1208660011593 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 1208660011594 catalytic triad [active] 1208660011595 conserved cis-peptide bond; other site 1208660011596 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 1208660011597 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208660011598 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1208660011599 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 1208660011600 ATP binding site [chemical binding]; other site 1208660011601 Mg++ binding site [ion binding]; other site 1208660011602 motif III; other site 1208660011603 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 1208660011604 nucleotide binding region [chemical binding]; other site 1208660011605 ATP-binding site [chemical binding]; other site 1208660011606 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1208660011607 putative RNA binding site [nucleotide binding]; other site 1208660011609 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660011610 DNA-binding site [nucleotide binding]; DNA binding site 1208660011611 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1208660011612 FCD domain; Region: FCD; pfam07729 1208660011613 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1208660011614 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1208660011615 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1208660011616 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1208660011617 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1208660011618 Coenzyme A binding pocket [chemical binding]; other site 1208660011619 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1208660011620 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1208660011621 HIGH motif; other site 1208660011622 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1208660011623 active site 1208660011624 KMSKS motif; other site 1208660011625 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208660011628 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1208660011629 ATP cone domain; Region: ATP-cone; pfam03477 1208660011630 ATP cone domain; Region: ATP-cone; pfam03477 1208660011631 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1208660011632 active site 1208660011633 dimer interface [polypeptide binding]; other site 1208660011634 catalytic residues [active] 1208660011635 effector binding site; other site 1208660011636 R2 peptide binding site; other site 1208660011637 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1208660011638 dimer interface [polypeptide binding]; other site 1208660011639 putative radical transfer pathway; other site 1208660011640 diiron center [ion binding]; other site 1208660011641 tyrosyl radical; other site 1208660011642 YGGT family; Region: YGGT; pfam02325 1208660011643 YGGT family; Region: YGGT; pfam02325 1208660011644 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 1208660011645 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 1208660011646 acyl-activating enzyme (AAE) consensus motif; other site 1208660011647 AMP binding site [chemical binding]; other site 1208660011648 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 1208660011649 DltD C-terminal region; Region: DltD_C; pfam04914 1208660011650 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1208660011651 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1208660011652 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 1208660011653 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1208660011654 substrate binding site [chemical binding]; other site 1208660011655 ATP binding site [chemical binding]; other site 1208660011656 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1208660011657 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1208660011658 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1208660011659 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 1208660011660 S-adenosylmethionine binding site [chemical binding]; other site 1208660011661 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1208660011662 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1208660011663 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1208660011664 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1208660011665 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1208660011666 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 1208660011667 carboxyltransferase (CT) interaction site; other site 1208660011668 biotinylation site [posttranslational modification]; other site 1208660011669 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 1208660011670 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1208660011671 trimer interface [polypeptide binding]; other site 1208660011672 active site 1208660011673 dimer interface [polypeptide binding]; other site 1208660011674 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 1208660011675 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1208660011676 catalytic residues [active] 1208660011677 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1208660011678 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1208660011679 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1208660011680 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1208660011681 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1208660011682 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1208660011683 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 1208660011684 RNB domain; Region: RNB; pfam00773 1208660011685 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1208660011686 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1208660011687 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1208660011688 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1208660011689 shikimate binding site; other site 1208660011690 NAD(P) binding site [chemical binding]; other site 1208660011691 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1208660011692 Transglycosylase; Region: Transgly; cl17702 1208660011693 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1208660011694 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1208660011695 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1208660011696 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1208660011697 active site 1208660011698 metal binding site [ion binding]; metal-binding site 1208660011699 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1208660011700 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1208660011701 putative acyl-acceptor binding pocket; other site 1208660011702 dihydroorotase; Provisional; Region: PRK07627 1208660011703 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 1208660011704 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 1208660011705 active site 1208660011706 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1208660011707 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1208660011708 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1208660011709 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1208660011710 hypothetical protein; Validated; Region: PRK00228 1208660011711 Rubredoxin [Energy production and conversion]; Region: COG1773 1208660011712 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 1208660011713 iron binding site [ion binding]; other site 1208660011714 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 1208660011715 substrate binding site [chemical binding]; other site 1208660011716 dimer interface [polypeptide binding]; other site 1208660011717 ATP binding site [chemical binding]; other site 1208660011718 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 1208660011719 thiamine phosphate binding site [chemical binding]; other site 1208660011720 active site 1208660011721 pyrophosphate binding site [ion binding]; other site 1208660011722 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1208660011723 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 1208660011724 inhibitor-cofactor binding pocket; inhibition site 1208660011725 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660011726 catalytic residue [active] 1208660011728 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 1208660011729 homotrimer interaction site [polypeptide binding]; other site 1208660011730 putative active site [active] 1208660011731 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 1208660011732 active site 1208660011733 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208660011734 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1208660011735 acyl-activating enzyme (AAE) consensus motif; other site 1208660011736 AMP binding site [chemical binding]; other site 1208660011737 active site 1208660011738 CoA binding site [chemical binding]; other site 1208660011739 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208660011740 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208660011741 active site 1208660011742 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208660011743 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 1208660011744 substrate binding site [chemical binding]; other site 1208660011745 oxyanion hole (OAH) forming residues; other site 1208660011746 trimer interface [polypeptide binding]; other site 1208660011749 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660011750 ATP binding site [chemical binding]; other site 1208660011751 Walker A/P-loop; other site 1208660011752 ABC transporter; Region: ABC_tran; pfam00005 1208660011753 Q-loop/lid; other site 1208660011754 ABC transporter signature motif; other site 1208660011755 Walker B; other site 1208660011756 D-loop; other site 1208660011757 H-loop/switch region; other site 1208660011758 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208660011759 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208660011760 Walker A/P-loop; other site 1208660011761 ATP binding site [chemical binding]; other site 1208660011762 Q-loop/lid; other site 1208660011763 ABC transporter signature motif; other site 1208660011764 Walker B; other site 1208660011765 D-loop; other site 1208660011766 H-loop/switch region; other site 1208660011767 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1208660011768 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 1208660011769 TM-ABC transporter signature motif; other site 1208660011770 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 1208660011771 TM-ABC transporter signature motif; other site 1208660011772 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208660011773 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 1208660011774 putative ligand binding site [chemical binding]; other site 1208660011775 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1208660011776 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 1208660011777 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1208660011778 MarR family; Region: MarR; pfam01047 1208660011779 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 1208660011780 heterotetramer interface [polypeptide binding]; other site 1208660011781 active site pocket [active] 1208660011782 cleavage site 1208660011783 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1208660011784 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 1208660011785 Walker A motif; other site 1208660011786 ATP binding site [chemical binding]; other site 1208660011787 Walker B motif; other site 1208660011788 hypothetical protein; Provisional; Region: PRK08999 1208660011789 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 1208660011790 active site 1208660011791 8-oxo-dGMP binding site [chemical binding]; other site 1208660011792 nudix motif; other site 1208660011793 metal binding site [ion binding]; metal-binding site 1208660011794 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 1208660011795 active site 1208660011796 thiamine phosphate binding site [chemical binding]; other site 1208660011797 pyrophosphate binding site [ion binding]; other site 1208660011798 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1208660011799 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1208660011801 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1208660011802 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1208660011803 HlyD family secretion protein; Region: HlyD_3; pfam13437 1208660011804 hypothetical protein; Provisional; Region: PRK05287 1208660011805 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1208660011806 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 1208660011807 CoA-binding site [chemical binding]; other site 1208660011808 ATP-binding [chemical binding]; other site 1208660011809 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1208660011810 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 1208660011811 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1208660011812 NlpE N-terminal domain; Region: NlpE; pfam04170 1208660011813 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1208660011814 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 1208660011815 DNA binding residues [nucleotide binding] 1208660011816 dimerization interface [polypeptide binding]; other site 1208660011817 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1208660011818 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1208660011819 active site 1208660011820 ATP-binding site [chemical binding]; other site 1208660011821 pantoate-binding site; other site 1208660011822 HXXH motif; other site 1208660011823 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1208660011824 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 1208660011825 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 1208660011826 putative substrate translocation pore; other site 1208660011827 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1208660011828 glycerol kinase; Provisional; Region: glpK; PRK00047 1208660011829 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1208660011830 N- and C-terminal domain interface [polypeptide binding]; other site 1208660011831 active site 1208660011832 MgATP binding site [chemical binding]; other site 1208660011833 catalytic site [active] 1208660011834 metal binding site [ion binding]; metal-binding site 1208660011835 glycerol binding site [chemical binding]; other site 1208660011836 homotetramer interface [polypeptide binding]; other site 1208660011837 homodimer interface [polypeptide binding]; other site 1208660011838 FBP binding site [chemical binding]; other site 1208660011839 protein IIAGlc interface [polypeptide binding]; other site 1208660011840 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 1208660011841 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660011842 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208660011843 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208660011844 Walker A/P-loop; other site 1208660011845 ATP binding site [chemical binding]; other site 1208660011846 Q-loop/lid; other site 1208660011847 ABC transporter signature motif; other site 1208660011848 Walker B; other site 1208660011849 D-loop; other site 1208660011850 H-loop/switch region; other site 1208660011851 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660011852 dimer interface [polypeptide binding]; other site 1208660011853 conserved gate region; other site 1208660011854 putative PBP binding loops; other site 1208660011855 ABC-ATPase subunit interface; other site 1208660011856 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1208660011857 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660011858 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660011859 dimer interface [polypeptide binding]; other site 1208660011860 conserved gate region; other site 1208660011861 putative PBP binding loops; other site 1208660011862 ABC-ATPase subunit interface; other site 1208660011863 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1208660011864 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 1208660011865 substrate binding pocket [chemical binding]; other site 1208660011866 membrane-bound complex binding site; other site 1208660011867 hinge residues; other site 1208660011868 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1208660011869 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660011870 Walker A/P-loop; other site 1208660011871 ATP binding site [chemical binding]; other site 1208660011872 Q-loop/lid; other site 1208660011873 ABC transporter signature motif; other site 1208660011874 Walker B; other site 1208660011875 D-loop; other site 1208660011876 H-loop/switch region; other site 1208660011877 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1208660011878 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 1208660011879 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1208660011880 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 1208660011881 dimer interface [polypeptide binding]; other site 1208660011882 PYR/PP interface [polypeptide binding]; other site 1208660011883 TPP binding site [chemical binding]; other site 1208660011884 substrate binding site [chemical binding]; other site 1208660011885 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 1208660011886 TPP-binding site; other site 1208660011887 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1208660011888 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1208660011889 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1208660011890 minor groove reading motif; other site 1208660011891 helix-hairpin-helix signature motif; other site 1208660011892 substrate binding pocket [chemical binding]; other site 1208660011893 active site 1208660011894 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1208660011895 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 1208660011896 DNA binding and oxoG recognition site [nucleotide binding] 1208660011897 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 1208660011898 salt bridge; other site 1208660011899 non-specific DNA binding site [nucleotide binding]; other site 1208660011900 sequence-specific DNA binding site [nucleotide binding]; other site 1208660011902 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1208660011903 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1208660011904 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 1208660011905 substrate binding pocket [chemical binding]; other site 1208660011906 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 1208660011907 B12 binding site [chemical binding]; other site 1208660011908 cobalt ligand [ion binding]; other site 1208660011909 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1208660011910 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1208660011911 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 1208660011912 N-terminal plug; other site 1208660011913 ligand-binding site [chemical binding]; other site 1208660011914 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 1208660011915 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1208660011916 cobalamin binding residues [chemical binding]; other site 1208660011917 putative BtuC binding residues; other site 1208660011918 dimer interface [polypeptide binding]; other site 1208660011919 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 1208660011920 ThiS interaction site; other site 1208660011921 putative active site [active] 1208660011922 tetramer interface [polypeptide binding]; other site 1208660011923 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 1208660011924 dimer interface [polypeptide binding]; other site 1208660011925 substrate binding site [chemical binding]; other site 1208660011926 ATP binding site [chemical binding]; other site 1208660011927 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1208660011928 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 1208660011929 S-adenosylmethionine binding site [chemical binding]; other site 1208660011931 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1208660011932 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1208660011933 active site 1208660011934 nucleotide binding site [chemical binding]; other site 1208660011935 HIGH motif; other site 1208660011936 KMSKS motif; other site 1208660011937 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1208660011938 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1208660011939 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1208660011940 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1208660011941 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 1208660011942 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1208660011943 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 1208660011944 S-adenosylmethionine binding site [chemical binding]; other site 1208660011945 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1208660011946 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 1208660011947 active site 1208660011948 phosphorylation site [posttranslational modification] 1208660011949 intermolecular recognition site; other site 1208660011950 dimerization interface [polypeptide binding]; other site 1208660011951 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 1208660011952 DNA binding site [nucleotide binding] 1208660011953 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1208660011954 PAS domain; Region: PAS; smart00091 1208660011955 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 1208660011956 dimer interface [polypeptide binding]; other site 1208660011957 phosphorylation site [posttranslational modification] 1208660011958 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 1208660011959 ATP binding site [chemical binding]; other site 1208660011960 G-X-G motif; other site 1208660011961 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1208660011962 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 1208660011963 active site 1208660011964 phosphorylation site [posttranslational modification] 1208660011965 intermolecular recognition site; other site 1208660011966 dimerization interface [polypeptide binding]; other site 1208660011967 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 1208660011968 DNA binding site [nucleotide binding] 1208660011969 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1208660011970 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 1208660011971 dimerization interface [polypeptide binding]; other site 1208660011972 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 1208660011973 dimer interface [polypeptide binding]; other site 1208660011974 phosphorylation site [posttranslational modification] 1208660011975 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 1208660011976 ATP binding site [chemical binding]; other site 1208660011977 G-X-G motif; other site 1208660011978 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1208660011979 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1208660011980 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1208660011981 ligand binding site [chemical binding]; other site 1208660011982 NAD binding site [chemical binding]; other site 1208660011983 tetramer interface [polypeptide binding]; other site 1208660011984 catalytic site [active] 1208660011985 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1208660011986 L-serine binding site [chemical binding]; other site 1208660011987 ACT domain interface; other site 1208660011988 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660011989 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660011990 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 1208660011991 putative dimerization interface [polypeptide binding]; other site 1208660011992 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 1208660011993 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208660011994 putative metal binding site [ion binding]; other site 1208660011995 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1208660011996 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1208660011997 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1208660011998 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1208660011999 putative active site [active] 1208660012000 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660012001 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660012002 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660012003 Tripartite tricarboxylate transporter family receptor; Region: TctC; pfam03401 1208660012004 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1208660012005 salicylate hydroxylase; Provisional; Region: PRK08163 1208660012006 enoyl-CoA hydratase; Provisional; Region: PRK08290 1208660012007 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 1208660012008 substrate binding site [chemical binding]; other site 1208660012009 oxyanion hole (OAH) forming residues; other site 1208660012010 trimer interface [polypeptide binding]; other site 1208660012011 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 1208660012012 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1208660012013 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660012014 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660012015 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208660012016 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660012017 DNA-binding site [nucleotide binding]; DNA binding site 1208660012018 FCD domain; Region: FCD; pfam07729 1208660012019 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 1208660012020 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1208660012021 FAD binding domain; Region: FAD_binding_4; pfam01565 1208660012022 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1208660012023 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 1208660012024 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1208660012025 Cysteine-rich domain; Region: CCG; pfam02754 1208660012026 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 1208660012027 Predicted membrane protein [Function unknown]; Region: COG1238 1208660012028 threonine dehydratase; Reviewed; Region: PRK09224 1208660012029 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 1208660012030 tetramer interface [polypeptide binding]; other site 1208660012031 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660012032 catalytic residue [active] 1208660012033 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1208660012034 putative Ile/Val binding site [chemical binding]; other site 1208660012035 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1208660012036 putative Ile/Val binding site [chemical binding]; other site 1208660012037 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1208660012038 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 1208660012039 trimer interface [polypeptide binding]; other site 1208660012040 eyelet of channel; other site 1208660012042 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660012043 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660012044 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 1208660012045 putative effector binding pocket; other site 1208660012046 dimerization interface [polypeptide binding]; other site 1208660012047 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1208660012048 active site 1208660012049 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660012050 Walker A/P-loop; other site 1208660012051 ATP binding site [chemical binding]; other site 1208660012052 ABC transporter; Region: ABC_tran; pfam00005 1208660012053 Q-loop/lid; other site 1208660012054 ABC transporter signature motif; other site 1208660012055 Walker B; other site 1208660012056 D-loop; other site 1208660012057 H-loop/switch region; other site 1208660012058 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 1208660012059 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660012060 Walker A/P-loop; other site 1208660012061 ATP binding site [chemical binding]; other site 1208660012062 Q-loop/lid; other site 1208660012063 ABC transporter signature motif; other site 1208660012064 Walker B; other site 1208660012065 D-loop; other site 1208660012066 H-loop/switch region; other site 1208660012067 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 1208660012068 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1208660012069 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1208660012070 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1208660012071 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1208660012072 Predicted transcriptional regulators [Transcription]; Region: COG1510 1208660012073 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 1208660012074 dimerization interface [polypeptide binding]; other site 1208660012075 putative DNA binding site [nucleotide binding]; other site 1208660012076 putative Zn2+ binding site [ion binding]; other site 1208660012077 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1208660012078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660012079 ATP-grasp domain; Region: ATP-grasp; pfam02222 1208660012080 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1208660012081 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 1208660012082 putative active site [active] 1208660012083 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 1208660012084 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1208660012085 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 1208660012086 active site 1208660012087 motif I; other site 1208660012088 motif II; other site 1208660012089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 1208660012090 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1208660012091 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1208660012092 OstA-like protein; Region: OstA; pfam03968 1208660012093 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1208660012094 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1208660012095 Walker A/P-loop; other site 1208660012096 ATP binding site [chemical binding]; other site 1208660012097 Q-loop/lid; other site 1208660012098 ABC transporter signature motif; other site 1208660012099 Walker B; other site 1208660012100 D-loop; other site 1208660012101 H-loop/switch region; other site 1208660012102 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 1208660012103 30S subunit binding site; other site 1208660012104 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 1208660012105 active site 1208660012106 phosphorylation site [posttranslational modification] 1208660012107 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1208660012108 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1208660012109 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 1208660012110 Hpr binding site; other site 1208660012111 active site 1208660012112 homohexamer subunit interaction site [polypeptide binding]; other site 1208660012114 Cytochrome c; Region: Cytochrom_C; cl11414 1208660012115 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1208660012116 Cytochrome c; Region: Cytochrom_C; cl11414 1208660012117 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1208660012118 AAA domain; Region: AAA_18; pfam13238 1208660012119 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1208660012120 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1208660012121 Sporulation related domain; Region: SPOR; pfam05036 1208660012122 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1208660012123 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1208660012124 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 1208660012125 DNA binding site [nucleotide binding] 1208660012126 active site 1208660012127 Predicted methyltransferases [General function prediction only]; Region: COG0313 1208660012128 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1208660012129 putative SAM binding site [chemical binding]; other site 1208660012130 putative homodimer interface [polypeptide binding]; other site 1208660012131 hypothetical protein; Provisional; Region: PRK14685 1208660012132 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 1208660012133 active site 1208660012134 dimer interface [polypeptide binding]; other site 1208660012135 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1208660012136 BON domain; Region: BON; pfam04972 1208660012137 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 1208660012138 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1208660012139 catalytic residues [active] 1208660012140 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1208660012141 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1208660012142 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 1208660012143 feedback inhibition sensing region; other site 1208660012144 homohexameric interface [polypeptide binding]; other site 1208660012145 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1208660012146 nucleotide binding site [chemical binding]; other site 1208660012147 N-acetyl-L-glutamate binding site [chemical binding]; other site 1208660012148 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 1208660012149 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 1208660012150 motif II; other site 1208660012151 division inhibitor protein; Provisional; Region: slmA; PRK09480 1208660012152 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660012153 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 1208660012154 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1208660012155 transmembrane helices; other site 1208660012156 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1208660012157 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1208660012158 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1208660012159 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1208660012160 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1208660012161 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 1208660012162 rod shape-determining protein MreC; Provisional; Region: PRK13922 1208660012163 rod shape-determining protein MreC; Region: MreC; pfam04085 1208660012164 rod shape-determining protein MreB; Provisional; Region: PRK13927 1208660012165 MreB and similar proteins; Region: MreB_like; cd10225 1208660012166 nucleotide binding site [chemical binding]; other site 1208660012167 Mg binding site [ion binding]; other site 1208660012168 putative protofilament interaction site [polypeptide binding]; other site 1208660012169 RodZ interaction site [polypeptide binding]; other site 1208660012170 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1208660012171 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208660012172 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1208660012173 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1208660012174 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1208660012175 GatB domain; Region: GatB_Yqey; smart00845 1208660012176 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1208660012177 active site 1208660012178 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1208660012179 putative active site [active] 1208660012180 putative catalytic site [active] 1208660012181 putative DNA binding site [nucleotide binding]; other site 1208660012182 putative phosphate binding site [ion binding]; other site 1208660012183 metal binding site A [ion binding]; metal-binding site 1208660012184 putative AP binding site [nucleotide binding]; other site 1208660012185 putative metal binding site B [ion binding]; other site 1208660012186 glutamate dehydrogenase; Provisional; Region: PRK09414 1208660012187 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1208660012188 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1208660012189 NAD(P) binding site [chemical binding]; other site 1208660012190 Predicted membrane protein [Function unknown]; Region: COG2860 1208660012191 UPF0126 domain; Region: UPF0126; pfam03458 1208660012192 UPF0126 domain; Region: UPF0126; pfam03458 1208660012193 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 1208660012194 Ligand Binding Site [chemical binding]; other site 1208660012195 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 1208660012196 Ligand Binding Site [chemical binding]; other site 1208660012197 transcriptional activator TtdR; Provisional; Region: PRK09801 1208660012198 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660012199 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 1208660012200 putative effector binding pocket; other site 1208660012201 putative dimerization interface [polypeptide binding]; other site 1208660012202 tartrate dehydrogenase; Region: TTC; TIGR02089 1208660012203 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1208660012204 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1208660012205 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1208660012206 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1208660012207 Domain of unknown function (DUF305); Region: DUF305; pfam03713 1208660012208 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1208660012209 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 1208660012210 active site 1208660012211 phosphorylation site [posttranslational modification] 1208660012212 intermolecular recognition site; other site 1208660012213 dimerization interface [polypeptide binding]; other site 1208660012214 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 1208660012215 DNA binding site [nucleotide binding] 1208660012218 D-cysteine desulfhydrase; Validated; Region: PRK03910 1208660012219 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 1208660012220 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1208660012221 catalytic residue [active] 1208660012222 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 1208660012223 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1208660012224 substrate binding pocket [chemical binding]; other site 1208660012225 membrane-bound complex binding site; other site 1208660012226 hinge residues; other site 1208660012227 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660012228 dimer interface [polypeptide binding]; other site 1208660012229 conserved gate region; other site 1208660012230 putative PBP binding loops; other site 1208660012231 ABC-ATPase subunit interface; other site 1208660012232 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1208660012233 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660012234 dimer interface [polypeptide binding]; other site 1208660012235 conserved gate region; other site 1208660012236 putative PBP binding loops; other site 1208660012237 ABC-ATPase subunit interface; other site 1208660012238 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1208660012239 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1208660012240 Walker A/P-loop; other site 1208660012241 ATP binding site [chemical binding]; other site 1208660012242 Q-loop/lid; other site 1208660012243 ABC transporter signature motif; other site 1208660012244 Walker B; other site 1208660012245 D-loop; other site 1208660012246 H-loop/switch region; other site 1208660012247 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1208660012248 aspartate racemase; Region: asp_race; TIGR00035 1208660012249 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1208660012250 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 1208660012251 trimer interface [polypeptide binding]; other site 1208660012252 eyelet of channel; other site 1208660012253 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1208660012254 muropeptide transporter; Validated; Region: ampG; cl17669 1208660012255 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 1208660012256 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1208660012257 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1208660012258 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1208660012259 Membrane transport protein; Region: Mem_trans; cl09117 1208660012260 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 1208660012261 DNA binding residues [nucleotide binding] 1208660012262 monoglyceride lipase; Provisional; Region: PHA02857 1208660012263 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1208660012264 Serine hydrolase; Region: Ser_hydrolase; cl17834 1208660012265 glutamate--cysteine ligase; Provisional; Region: PRK02107 1208660012266 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1208660012269 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660012270 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660012271 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 1208660012272 dimerization interface [polypeptide binding]; other site 1208660012273 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 1208660012274 active site 1208660012275 oligomerization interface [polypeptide binding]; other site 1208660012276 metal binding site [ion binding]; metal-binding site 1208660012277 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1208660012278 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 1208660012279 trimer interface [polypeptide binding]; other site 1208660012280 eyelet of channel; other site 1208660012281 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1208660012282 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1208660012283 DNA binding site [nucleotide binding] 1208660012284 domain linker motif; other site 1208660012285 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 1208660012286 putative dimerization interface [polypeptide binding]; other site 1208660012287 putative ligand binding site [chemical binding]; other site 1208660012289 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660012290 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 1208660012291 TM-ABC transporter signature motif; other site 1208660012292 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208660012293 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208660012294 Walker A/P-loop; other site 1208660012295 ATP binding site [chemical binding]; other site 1208660012296 Q-loop/lid; other site 1208660012297 ABC transporter signature motif; other site 1208660012298 Walker B; other site 1208660012299 D-loop; other site 1208660012300 H-loop/switch region; other site 1208660012301 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1208660012302 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1208660012303 Walker A/P-loop; other site 1208660012304 ATP binding site [chemical binding]; other site 1208660012305 Q-loop/lid; other site 1208660012306 ABC transporter signature motif; other site 1208660012307 Walker B; other site 1208660012308 D-loop; other site 1208660012309 H-loop/switch region; other site 1208660012310 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1208660012311 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1208660012312 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208660012313 Amidase; Region: Amidase; pfam01425 1208660012314 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1208660012315 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660012316 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660012317 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660012319 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208660012320 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 1208660012321 substrate binding site [chemical binding]; other site 1208660012322 oxyanion hole (OAH) forming residues; other site 1208660012323 trimer interface [polypeptide binding]; other site 1208660012324 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1208660012325 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1208660012326 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1208660012327 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1208660012328 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1208660012329 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1208660012330 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1208660012331 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1208660012332 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1208660012333 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1208660012334 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1208660012335 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208660012336 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208660012337 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660012338 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660012339 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208660012340 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208660012341 active site 1208660012342 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660012343 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660012344 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1208660012345 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 1208660012346 FMN binding site [chemical binding]; other site 1208660012347 substrate binding site [chemical binding]; other site 1208660012348 putative catalytic residue [active] 1208660012349 enoyl-CoA hydratase; Provisional; Region: PRK06688 1208660012350 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 1208660012351 substrate binding site [chemical binding]; other site 1208660012352 oxyanion hole (OAH) forming residues; other site 1208660012353 trimer interface [polypeptide binding]; other site 1208660012354 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 1208660012355 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208660012356 trimer interface [polypeptide binding]; other site 1208660012357 oxyanion hole (OAH) forming residues; other site 1208660012358 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 1208660012359 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 1208660012360 putative ATP binding site [chemical binding]; other site 1208660012361 putative substrate binding site [chemical binding]; other site 1208660012362 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 1208660012363 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1208660012364 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 1208660012365 putative active site [active] 1208660012366 Zn binding site [ion binding]; other site 1208660012367 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208660012368 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660012369 dimer interface [polypeptide binding]; other site 1208660012370 conserved gate region; other site 1208660012371 putative PBP binding loops; other site 1208660012372 ABC-ATPase subunit interface; other site 1208660012373 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1208660012374 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660012375 dimer interface [polypeptide binding]; other site 1208660012376 conserved gate region; other site 1208660012377 putative PBP binding loops; other site 1208660012378 ABC-ATPase subunit interface; other site 1208660012380 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1208660012381 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660012382 Walker A/P-loop; other site 1208660012383 ATP binding site [chemical binding]; other site 1208660012384 Q-loop/lid; other site 1208660012385 ABC transporter signature motif; other site 1208660012386 Walker B; other site 1208660012387 D-loop; other site 1208660012388 H-loop/switch region; other site 1208660012389 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1208660012390 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 1208660012392 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1208660012393 Part of AAA domain; Region: AAA_19; pfam13245 1208660012394 Family description; Region: UvrD_C_2; pfam13538 1208660012395 primosome assembly protein PriA; Validated; Region: PRK05580 1208660012396 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 1208660012397 ATP binding site [chemical binding]; other site 1208660012398 putative Mg++ binding site [ion binding]; other site 1208660012399 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1208660012400 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 1208660012401 substrate binding site [chemical binding]; other site 1208660012402 active site 1208660012403 response regulator GlrR; Provisional; Region: PRK15115 1208660012404 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1208660012405 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1208660012406 gamma subunit interface [polypeptide binding]; other site 1208660012407 epsilon subunit interface [polypeptide binding]; other site 1208660012408 LBP interface [polypeptide binding]; other site 1208660012409 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1208660012410 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1208660012411 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 1208660012412 alpha subunit interaction interface [polypeptide binding]; other site 1208660012413 Walker A motif; other site 1208660012414 ATP binding site [chemical binding]; other site 1208660012415 Walker B motif; other site 1208660012416 inhibitor binding site; inhibition site 1208660012417 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1208660012418 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1208660012419 core domain interface [polypeptide binding]; other site 1208660012420 delta subunit interface [polypeptide binding]; other site 1208660012421 epsilon subunit interface [polypeptide binding]; other site 1208660012422 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1208660012423 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1208660012424 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 1208660012425 beta subunit interaction interface [polypeptide binding]; other site 1208660012426 Walker A motif; other site 1208660012427 ATP binding site [chemical binding]; other site 1208660012428 Walker B motif; other site 1208660012429 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1208660012430 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1208660012431 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1208660012432 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1208660012433 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1208660012434 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1208660012435 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1208660012436 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1208660012438 enoyl-CoA hydratase; Provisional; Region: PRK05862 1208660012439 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 1208660012440 substrate binding site [chemical binding]; other site 1208660012441 oxyanion hole (OAH) forming residues; other site 1208660012442 trimer interface [polypeptide binding]; other site 1208660012443 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1208660012444 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1208660012445 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 1208660012446 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1208660012447 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1208660012448 Dihydroneopterin aldolase; Region: FolB; pfam02152 1208660012449 active site 1208660012450 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1208660012451 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 1208660012452 Ligand Binding Site [chemical binding]; other site 1208660012453 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1208660012454 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 1208660012455 dimerization interface [polypeptide binding]; other site 1208660012456 NAD binding site [chemical binding]; other site 1208660012457 ligand binding site [chemical binding]; other site 1208660012458 catalytic site [active] 1208660012459 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 1208660012460 dimerization domain [polypeptide binding]; other site 1208660012461 dimer interface [polypeptide binding]; other site 1208660012462 catalytic residues [active] 1208660012463 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 1208660012464 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1208660012465 MltA specific insert domain; Region: MltA; smart00925 1208660012466 3D domain; Region: 3D; pfam06725 1208660012467 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1208660012468 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 1208660012469 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1208660012470 substrate binding site [chemical binding]; other site 1208660012471 hexamer interface [polypeptide binding]; other site 1208660012472 metal binding site [ion binding]; metal-binding site 1208660012473 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1208660012474 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 1208660012475 motif II; other site 1208660012476 anthranilate synthase component I; Provisional; Region: PRK13565 1208660012477 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1208660012478 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1208660012479 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1208660012480 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1208660012481 glutamine binding [chemical binding]; other site 1208660012482 catalytic triad [active] 1208660012483 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1208660012484 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1208660012485 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1208660012486 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 1208660012487 active site 1208660012488 ribulose/triose binding site [chemical binding]; other site 1208660012489 phosphate binding site [ion binding]; other site 1208660012490 substrate (anthranilate) binding pocket [chemical binding]; other site 1208660012491 product (indole) binding pocket [chemical binding]; other site 1208660012492 short chain dehydrogenase; Provisional; Region: PRK06123 1208660012493 classical (c) SDRs; Region: SDR_c; cd05233 1208660012494 NAD(P) binding site [chemical binding]; other site 1208660012495 active site 1208660012496 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 1208660012497 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1208660012498 putative catalytic residue [active] 1208660012499 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 1208660012500 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1208660012501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660012502 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 1208660012503 dimerization interface [polypeptide binding]; other site 1208660012504 substrate binding pocket [chemical binding]; other site 1208660012505 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1208660012506 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1208660012507 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1208660012508 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1208660012509 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 1208660012510 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1208660012511 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1208660012512 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1208660012513 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1208660012514 NodB motif; other site 1208660012515 active site 1208660012516 catalytic site [active] 1208660012517 metal binding site [ion binding]; metal-binding site 1208660012518 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1208660012519 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1208660012520 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1208660012521 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 1208660012522 substrate binding pocket [chemical binding]; other site 1208660012523 membrane-bound complex binding site; other site 1208660012524 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1208660012525 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 1208660012526 catalytic loop [active] 1208660012527 iron binding site [ion binding]; other site 1208660012528 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 1208660012529 FAD binding pocket [chemical binding]; other site 1208660012530 FAD binding motif [chemical binding]; other site 1208660012531 phosphate binding motif [ion binding]; other site 1208660012532 beta-alpha-beta structure motif; other site 1208660012533 NAD binding pocket [chemical binding]; other site 1208660012534 Domain of unknown function (DUF336); Region: DUF336; pfam03928 1208660012535 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1208660012536 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208660012537 NAD(P) binding site [chemical binding]; other site 1208660012538 catalytic residues [active] 1208660012540 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1208660012541 SepZ; Region: SepZ; pfam06066 1208660012542 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1208660012543 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660012544 DNA-binding site [nucleotide binding]; DNA binding site 1208660012545 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1208660012546 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1208660012547 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1208660012548 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1208660012549 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 1208660012550 catalytic loop [active] 1208660012551 iron binding site [ion binding]; other site 1208660012552 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1208660012553 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 1208660012554 catalytic loop [active] 1208660012555 iron binding site [ion binding]; other site 1208660012556 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 1208660012557 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208660012558 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1208660012559 DNA binding residues [nucleotide binding] 1208660012560 fec operon regulator FecR; Reviewed; Region: PRK09774 1208660012561 FecR protein; Region: FecR; pfam04773 1208660012562 Secretin and TonB N terminus short domain; Region: STN; smart00965 1208660012563 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1208660012564 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 1208660012565 N-terminal plug; other site 1208660012566 ligand-binding site [chemical binding]; other site 1208660012567 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1208660012568 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1208660012569 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1208660012570 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 1208660012571 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1208660012572 intersubunit interface [polypeptide binding]; other site 1208660012573 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1208660012574 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 1208660012575 ABC-ATPase subunit interface; other site 1208660012576 dimer interface [polypeptide binding]; other site 1208660012577 putative PBP binding regions; other site 1208660012578 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1208660012579 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1208660012580 Walker A/P-loop; other site 1208660012581 ATP binding site [chemical binding]; other site 1208660012582 Q-loop/lid; other site 1208660012583 ABC transporter signature motif; other site 1208660012584 Walker B; other site 1208660012585 D-loop; other site 1208660012586 H-loop/switch region; other site 1208660012587 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1208660012588 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 1208660012589 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1208660012590 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1208660012591 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 1208660012592 DNA binding site [nucleotide binding] 1208660012593 active site 1208660012594 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1208660012595 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1208660012596 metal binding site [ion binding]; metal-binding site 1208660012597 active site 1208660012598 I-site; other site 1208660012599 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1208660012602 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660012603 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1208660012604 Beta-lactamase; Region: Beta-lactamase; pfam00144 1208660012605 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1208660012606 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 1208660012607 homodimer interface [polypeptide binding]; other site 1208660012608 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660012609 catalytic residue [active] 1208660012610 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1208660012611 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660012612 DNA-binding site [nucleotide binding]; DNA binding site 1208660012613 FCD domain; Region: FCD; pfam07729 1208660012614 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 1208660012615 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1208660012616 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 1208660012617 Subunit I/III interface [polypeptide binding]; other site 1208660012618 D-pathway; other site 1208660012619 Subunit I/VIIc interface [polypeptide binding]; other site 1208660012620 Subunit I/IV interface [polypeptide binding]; other site 1208660012621 Subunit I/II interface [polypeptide binding]; other site 1208660012622 Low-spin heme (heme a) binding site [chemical binding]; other site 1208660012623 Subunit I/VIIa interface [polypeptide binding]; other site 1208660012624 Subunit I/VIa interface [polypeptide binding]; other site 1208660012625 Dimer interface; other site 1208660012626 Putative water exit pathway; other site 1208660012627 Binuclear center (heme a3/CuB) [ion binding]; other site 1208660012628 K-pathway; other site 1208660012629 Subunit I/Vb interface [polypeptide binding]; other site 1208660012630 Putative proton exit pathway; other site 1208660012631 Subunit I/VIb interface; other site 1208660012632 Subunit I/VIc interface [polypeptide binding]; other site 1208660012633 Electron transfer pathway; other site 1208660012634 Subunit I/VIIIb interface [polypeptide binding]; other site 1208660012635 Subunit I/VIIb interface [polypeptide binding]; other site 1208660012636 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660012637 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1208660012638 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660012639 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 1208660012640 substrate binding pocket [chemical binding]; other site 1208660012641 dimerization interface [polypeptide binding]; other site 1208660012642 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1208660012643 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 1208660012644 motif II; other site 1208660012645 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660012646 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660012647 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 1208660012648 CoenzymeA binding site [chemical binding]; other site 1208660012649 subunit interaction site [polypeptide binding]; other site 1208660012650 PHB binding site; other site 1208660012651 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660012653 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660012654 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660012655 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660012656 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 1208660012657 dimerization interface [polypeptide binding]; other site 1208660012658 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1208660012659 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1208660012660 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1208660012661 DNA-binding site [nucleotide binding]; DNA binding site 1208660012662 FCD domain; Region: FCD; pfam07729 1208660012663 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1208660012664 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1208660012665 putative NAD(P) binding site [chemical binding]; other site 1208660012666 putative active site [active] 1208660012667 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1208660012668 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 1208660012669 active site pocket [active] 1208660012670 Cupin domain; Region: Cupin_2; pfam07883 1208660012671 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660012672 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208660012673 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660012674 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660012675 putative succinate dehydrogenase; Reviewed; Region: PRK12842 1208660012676 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1208660012677 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1208660012678 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660012679 Amidohydrolase; Region: Amidohydro_2; pfam04909 1208660012680 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1208660012681 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1208660012682 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1208660012683 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1208660012684 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208660012685 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1208660012687 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1208660012688 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 1208660012689 TM-ABC transporter signature motif; other site 1208660012690 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1208660012691 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1208660012692 Walker A/P-loop; other site 1208660012693 ATP binding site [chemical binding]; other site 1208660012694 Q-loop/lid; other site 1208660012695 ABC transporter signature motif; other site 1208660012696 Walker B; other site 1208660012697 D-loop; other site 1208660012698 H-loop/switch region; other site 1208660012700 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1208660012701 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1208660012702 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1208660012703 acyl-CoA synthetase; Validated; Region: PRK06145 1208660012704 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1208660012705 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1208660012706 acyl-activating enzyme (AAE) consensus motif; other site 1208660012707 acyl-activating enzyme (AAE) consensus motif; other site 1208660012708 putative AMP binding site [chemical binding]; other site 1208660012709 putative active site [active] 1208660012710 putative CoA binding site [chemical binding]; other site 1208660012711 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208660012712 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1208660012713 active site 1208660012714 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide acyltransferase (E2) component, and related enzymes [Energy production and conversion]; Region: AceF; COG0508 1208660012715 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 1208660012716 E3 interaction surface; other site 1208660012717 lipoyl attachment site [posttranslational modification]; other site 1208660012718 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1208660012720 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1208660012721 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 1208660012722 alpha subunit interface [polypeptide binding]; other site 1208660012723 TPP binding site [chemical binding]; other site 1208660012724 heterodimer interface [polypeptide binding]; other site 1208660012725 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1208660012726 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1208660012727 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 1208660012728 tetramer interface [polypeptide binding]; other site 1208660012729 TPP-binding site [chemical binding]; other site 1208660012730 heterodimer interface [polypeptide binding]; other site 1208660012731 phosphorylation loop region [posttranslational modification] 1208660012732 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1208660012733 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1208660012734 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660012735 (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 1208660012736 active site 1208660012737 catalytic site [active] 1208660012738 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1208660012739 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660012740 NAD(P) binding site [chemical binding]; other site 1208660012741 active site 1208660012742 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660012743 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660012744 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1208660012745 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 1208660012746 active site 1208660012747 active site 1208660012748 enoyl-CoA hydratase; Region: PLN02864 1208660012749 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 1208660012750 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 1208660012751 dimer interaction site [polypeptide binding]; other site 1208660012752 substrate-binding tunnel; other site 1208660012753 active site 1208660012754 catalytic site [active] 1208660012755 substrate binding site [chemical binding]; other site 1208660012756 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660012757 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660012758 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660012759 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660012760 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 1208660012761 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208660012762 putative active site [active] 1208660012763 putative metal binding site [ion binding]; other site 1208660012764 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 1208660012765 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1208660012766 active site 1208660012767 metal binding site [ion binding]; metal-binding site 1208660012768 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1208660012769 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1208660012770 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1208660012771 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 1208660012772 FMN-binding pocket [chemical binding]; other site 1208660012773 flavin binding motif; other site 1208660012774 phosphate binding motif [ion binding]; other site 1208660012775 beta-alpha-beta structure motif; other site 1208660012776 NAD binding pocket [chemical binding]; other site 1208660012777 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 1208660012778 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1208660012779 catalytic loop [active] 1208660012780 iron binding site [ion binding]; other site 1208660012782 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1208660012783 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1208660012784 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1208660012785 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660012786 dimer interface [polypeptide binding]; other site 1208660012787 conserved gate region; other site 1208660012788 putative PBP binding loops; other site 1208660012789 ABC-ATPase subunit interface; other site 1208660012790 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660012791 dimer interface [polypeptide binding]; other site 1208660012792 conserved gate region; other site 1208660012793 putative PBP binding loops; other site 1208660012794 ABC-ATPase subunit interface; other site 1208660012795 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1208660012796 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1208660012797 Walker A/P-loop; other site 1208660012798 ATP binding site [chemical binding]; other site 1208660012799 Q-loop/lid; other site 1208660012800 ABC transporter signature motif; other site 1208660012801 Walker B; other site 1208660012802 D-loop; other site 1208660012803 H-loop/switch region; other site 1208660012804 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1208660012805 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1208660012806 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1208660012807 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1208660012809 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1208660012810 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1208660012811 putative NAD(P) binding site [chemical binding]; other site 1208660012812 putative active site [active] 1208660012813 putative L-aspartate dehydrogenase; Provisional; Region: PRK13302 1208660012814 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1208660012815 Domain of unknown function DUF108; Region: DUF108; pfam01958 1208660012816 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1208660012817 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660012818 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 1208660012819 dimerization interface [polypeptide binding]; other site 1208660012820 substrate binding pocket [chemical binding]; other site 1208660012821 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 1208660012822 substrate binding site [chemical binding]; other site 1208660012824 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660012826 D-lactate dehydrogenase; Provisional; Region: PRK11183 1208660012827 FAD binding domain; Region: FAD_binding_4; pfam01565 1208660012828 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1208660012829 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 1208660012830 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1208660012831 active site 1208660012832 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1208660012833 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 1208660012834 FAD binding site [chemical binding]; other site 1208660012835 substrate binding site [chemical binding]; other site 1208660012836 catalytic base [active] 1208660012837 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660012838 acetylornithine deacetylase; Provisional; Region: PRK07522 1208660012839 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1208660012840 metal binding site [ion binding]; metal-binding site 1208660012841 putative dimer interface [polypeptide binding]; other site 1208660012843 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 1208660012844 homotrimer interaction site [polypeptide binding]; other site 1208660012845 putative active site [active] 1208660012846 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1208660012847 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 1208660012848 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1208660012849 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1208660012850 NADP binding site [chemical binding]; other site 1208660012851 dimer interface [polypeptide binding]; other site 1208660012852 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660012853 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660012854 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 1208660012855 putative substrate binding pocket [chemical binding]; other site 1208660012856 dimerization interface [polypeptide binding]; other site 1208660012857 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1208660012858 CoA binding domain; Region: CoA_binding_2; pfam13380 1208660012859 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1208660012860 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1208660012861 enoyl-CoA hydratase; Provisional; Region: PRK07658 1208660012862 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 1208660012863 substrate binding site [chemical binding]; other site 1208660012864 oxyanion hole (OAH) forming residues; other site 1208660012865 trimer interface [polypeptide binding]; other site 1208660012867 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660012868 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1208660012869 extended (e) SDRs; Region: SDR_e; cd08946 1208660012870 NAD(P) binding site [chemical binding]; other site 1208660012871 active site 1208660012872 substrate binding site [chemical binding]; other site 1208660012873 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1208660012874 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 1208660012875 glutaminase active site [active] 1208660012876 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 1208660012877 dimer interface [polypeptide binding]; other site 1208660012878 active site 1208660012879 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 1208660012880 dimer interface [polypeptide binding]; other site 1208660012881 active site 1208660012882 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208660012883 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 1208660012884 putative DNA binding site [nucleotide binding]; other site 1208660012885 putative Zn2+ binding site [ion binding]; other site 1208660012886 AsnC family; Region: AsnC_trans_reg; pfam01037 1208660012887 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1208660012888 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 1208660012889 dimer interface [polypeptide binding]; other site 1208660012890 active site 1208660012891 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1208660012892 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 1208660012893 substrate binding site [chemical binding]; other site 1208660012894 oxyanion hole (OAH) forming residues; other site 1208660012895 trimer interface [polypeptide binding]; other site 1208660012896 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1208660012897 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1208660012898 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208660012899 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1208660012900 Proteins involved in DNA damage response, similar to the AidB gene product; Region: AidB; cd01154 1208660012901 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1208660012902 FAD binding site [chemical binding]; other site 1208660012903 substrate binding site [chemical binding]; other site 1208660012904 catalytic residues [active] 1208660012905 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660012906 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1208660012907 CoA binding domain; Region: CoA_binding_2; pfam13380 1208660012908 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1208660012909 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1208660012910 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 1208660012911 active site 1208660012912 oxalacetate binding site [chemical binding]; other site 1208660012913 citrylCoA binding site [chemical binding]; other site 1208660012914 coenzyme A binding site [chemical binding]; other site 1208660012915 catalytic triad [active] 1208660012916 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208660012917 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660012918 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1208660012919 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1208660012920 molybdopterin cofactor binding site [chemical binding]; other site 1208660012921 substrate binding site [chemical binding]; other site 1208660012922 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1208660012923 molybdopterin cofactor binding site; other site 1208660012924 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1208660012925 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1208660012926 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 1208660012927 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1208660012928 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1208660012929 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1208660012930 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 1208660012931 putative substrate translocation pore; other site 1208660012932 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1208660012933 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1208660012934 Substrate binding site; other site 1208660012935 Mg++ binding site; other site 1208660012936 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 1208660012937 active site 1208660012938 substrate binding site [chemical binding]; other site 1208660012939 CoA binding site [chemical binding]; other site 1208660012940 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 1208660012941 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1208660012942 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 1208660012943 Cu(I) binding site [ion binding]; other site 1208660012944 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1208660012945 UbiA prenyltransferase family; Region: UbiA; pfam01040 1208660012946 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1208660012947 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1208660012948 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 1208660012949 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1208660012950 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 1208660012951 Subunit III/VIIa interface [polypeptide binding]; other site 1208660012952 Phospholipid binding site [chemical binding]; other site 1208660012953 Subunit I/III interface [polypeptide binding]; other site 1208660012954 Subunit III/VIb interface [polypeptide binding]; other site 1208660012955 Subunit III/VIa interface; other site 1208660012956 Subunit III/Vb interface [polypeptide binding]; other site 1208660012957 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1208660012958 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1208660012959 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 1208660012960 Subunit I/III interface [polypeptide binding]; other site 1208660012961 D-pathway; other site 1208660012962 Subunit I/VIIc interface [polypeptide binding]; other site 1208660012963 Subunit I/IV interface [polypeptide binding]; other site 1208660012964 Subunit I/II interface [polypeptide binding]; other site 1208660012965 Low-spin heme (heme a) binding site [chemical binding]; other site 1208660012966 Subunit I/VIIa interface [polypeptide binding]; other site 1208660012967 Subunit I/VIa interface [polypeptide binding]; other site 1208660012968 Dimer interface; other site 1208660012969 Putative water exit pathway; other site 1208660012970 Binuclear center (heme a3/CuB) [ion binding]; other site 1208660012971 K-pathway; other site 1208660012972 Subunit I/Vb interface [polypeptide binding]; other site 1208660012973 Putative proton exit pathway; other site 1208660012974 Subunit I/VIb interface; other site 1208660012975 Subunit I/VIc interface [polypeptide binding]; other site 1208660012976 Electron transfer pathway; other site 1208660012977 Subunit I/VIIIb interface [polypeptide binding]; other site 1208660012978 Subunit I/VIIb interface [polypeptide binding]; other site 1208660012979 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 1208660012980 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1208660012981 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1208660012982 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1208660012983 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1208660012984 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 1208660012985 nudix motif; other site 1208660012986 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1208660012987 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 1208660012988 flexible hinge region; other site 1208660012989 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1208660012990 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1208660012991 active site 1208660012992 metal binding site [ion binding]; metal-binding site 1208660012993 hexamer interface [polypeptide binding]; other site 1208660012994 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1208660012995 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1208660012996 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 1208660012997 DNA binding residues [nucleotide binding] 1208660012998 S-formylglutathione hydrolase; Region: PLN02442 1208660012999 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1208660013000 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1208660013001 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1208660013002 substrate binding site [chemical binding]; other site 1208660013003 catalytic Zn binding site [ion binding]; other site 1208660013004 NAD binding site [chemical binding]; other site 1208660013005 structural Zn binding site [ion binding]; other site 1208660013006 dimer interface [polypeptide binding]; other site 1208660013007 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1208660013008 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 1208660013009 active site 1208660013010 dimer interface [polypeptide binding]; other site 1208660013011 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1208660013012 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 1208660013013 active site 1208660013014 FMN binding site [chemical binding]; other site 1208660013015 substrate binding site [chemical binding]; other site 1208660013016 3Fe-4S cluster binding site [ion binding]; other site 1208660013017 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 1208660013018 domain interface; other site 1208660013019 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1208660013020 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1208660013021 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 1208660013022 OmpW family; Region: OmpW; cl17427 1208660013023 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660013024 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1208660013025 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1208660013026 Walker A/P-loop; other site 1208660013027 ATP binding site [chemical binding]; other site 1208660013028 Q-loop/lid; other site 1208660013029 ABC transporter signature motif; other site 1208660013030 Walker B; other site 1208660013031 D-loop; other site 1208660013032 H-loop/switch region; other site 1208660013033 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1208660013034 Permease; Region: Permease; pfam02405 1208660013035 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1208660013036 mce related protein; Region: MCE; pfam02470 1208660013037 VacJ like lipoprotein; Region: VacJ; cl01073 1208660013038 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1208660013039 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1208660013040 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 1208660013041 Walker A/P-loop; other site 1208660013042 ATP binding site [chemical binding]; other site 1208660013043 Q-loop/lid; other site 1208660013044 ABC transporter signature motif; other site 1208660013045 Walker B; other site 1208660013046 D-loop; other site 1208660013047 H-loop/switch region; other site 1208660013048 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1208660013049 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1208660013050 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1208660013051 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1208660013052 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 1208660013053 hinge; other site 1208660013054 active site 1208660013055 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1208660013056 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1208660013057 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1208660013058 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 1208660013059 NAD binding site [chemical binding]; other site 1208660013060 dimerization interface [polypeptide binding]; other site 1208660013061 product binding site; other site 1208660013062 substrate binding site [chemical binding]; other site 1208660013063 zinc binding site [ion binding]; other site 1208660013064 catalytic residues [active] 1208660013065 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 1208660013066 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 1208660013067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660013068 homodimer interface [polypeptide binding]; other site 1208660013069 catalytic residue [active] 1208660013070 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1208660013071 putative active site pocket [active] 1208660013072 4-fold oligomerization interface [polypeptide binding]; other site 1208660013073 metal binding residues [ion binding]; metal-binding site 1208660013074 3-fold/trimer interface [polypeptide binding]; other site 1208660013075 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1208660013076 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1208660013077 putative active site [active] 1208660013078 oxyanion strand; other site 1208660013079 catalytic triad [active] 1208660013080 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 1208660013081 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1208660013082 catalytic residues [active] 1208660013083 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 1208660013084 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1208660013085 substrate binding site [chemical binding]; other site 1208660013086 glutamase interaction surface [polypeptide binding]; other site 1208660013087 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1208660013088 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 1208660013089 metal binding site [ion binding]; metal-binding site 1208660013090 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 1208660013091 nucleotide binding site/active site [active] 1208660013092 HIT family signature motif; other site 1208660013093 catalytic residue [active] 1208660013094 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 1208660013095 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1208660013096 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1208660013097 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1208660013098 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 1208660013099 non-specific DNA binding site [nucleotide binding]; other site 1208660013100 salt bridge; other site 1208660013101 sequence-specific DNA binding site [nucleotide binding]; other site 1208660013102 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1208660013103 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 1208660013104 protein binding site [polypeptide binding]; other site 1208660013105 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1208660013106 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1208660013107 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1208660013108 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1208660013109 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1208660013110 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 1208660013111 [2Fe-2S] cluster binding site [ion binding]; other site 1208660013112 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1208660013113 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 1208660013114 Qi binding site; other site 1208660013115 intrachain domain interface; other site 1208660013116 interchain domain interface [polypeptide binding]; other site 1208660013117 heme bH binding site [chemical binding]; other site 1208660013118 heme bL binding site [chemical binding]; other site 1208660013119 Qo binding site; other site 1208660013120 interchain domain interface [polypeptide binding]; other site 1208660013121 intrachain domain interface; other site 1208660013122 Qi binding site; other site 1208660013123 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1208660013124 Qo binding site; other site 1208660013125 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1208660013126 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1208660013127 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 1208660013128 C-terminal domain interface [polypeptide binding]; other site 1208660013129 putative GSH binding site (G-site) [chemical binding]; other site 1208660013130 dimer interface [polypeptide binding]; other site 1208660013131 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1208660013132 dimer interface [polypeptide binding]; other site 1208660013133 N-terminal domain interface [polypeptide binding]; other site 1208660013134 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1208660013135 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1208660013136 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208660013137 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1208660013138 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 1208660013139 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1208660013140 active site 1208660013141 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1208660013142 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660013143 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 1208660013144 putative dimerization interface [polypeptide binding]; other site 1208660013145 thioredoxin reductase; Provisional; Region: PRK10262 1208660013146 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1208660013147 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1208660013148 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1208660013149 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1208660013150 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660013151 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 1208660013152 active site residue [active] 1208660013153 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 1208660013154 active site residue [active] 1208660013155 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 1208660013156 active site residue [active] 1208660013157 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 1208660013158 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1208660013159 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660013160 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660013161 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660013162 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1208660013163 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1208660013164 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 1208660013165 catalytic residues [active] 1208660013166 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 1208660013167 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660013168 Pertussis toxin, subunit 1; Region: Pertussis_S1; pfam02917 1208660013169 Aerolysin/Pertussis toxin (APT) domain; Region: APT; pfam03440 1208660013170 Pertussis toxin, subunit 2 and 3, C-terminal domain; Region: Pertussis_S2S3; pfam02918 1208660013171 Pertussis toxin S4 subunit; Region: Pertus-S4-tox; pfam09275 1208660013172 Pertussis toxin S5 subunit; Region: Pertus-S5-tox; pfam09276 1208660013173 Aerolysin/Pertussis toxin (APT) domain; Region: APT; pfam03440 1208660013174 Pertussis toxin, subunit 2 and 3, C-terminal domain; Region: Pertussis_S2S3; pfam02918 1208660013175 TrbC/VIRB2 family; Region: TrbC; pfam04956 1208660013176 Type IV secretory pathway, VirB3-like protein; Region: VirB3; pfam05101 1208660013177 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1208660013178 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1208660013179 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1208660013180 VirB8 protein; Region: VirB8; pfam04335 1208660013181 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1208660013182 VirB7 interaction site; other site 1208660013183 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1208660013184 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1208660013185 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 1208660013186 Walker A motif; other site 1208660013187 hexamer interface [polypeptide binding]; other site 1208660013188 ATP binding site [chemical binding]; other site 1208660013189 Walker B motif; other site 1208660013190 EamA-like transporter family; Region: EamA; pfam00892 1208660013191 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1208660013192 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1208660013193 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 1208660013194 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 1208660013195 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 1208660013196 G1 box; other site 1208660013197 GTP/Mg2+ binding site [chemical binding]; other site 1208660013198 G2 box; other site 1208660013199 Switch I region; other site 1208660013200 G3 box; other site 1208660013201 Switch II region; other site 1208660013202 G4 box; other site 1208660013203 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 1208660013205 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208660013206 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660013207 dimer interface [polypeptide binding]; other site 1208660013208 conserved gate region; other site 1208660013209 putative PBP binding loops; other site 1208660013210 ABC-ATPase subunit interface; other site 1208660013211 dipeptide transporter; Provisional; Region: PRK10913 1208660013212 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660013213 dimer interface [polypeptide binding]; other site 1208660013214 conserved gate region; other site 1208660013215 putative PBP binding loops; other site 1208660013216 ABC-ATPase subunit interface; other site 1208660013217 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1208660013218 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660013219 Walker A/P-loop; other site 1208660013220 ATP binding site [chemical binding]; other site 1208660013221 Q-loop/lid; other site 1208660013222 ABC transporter signature motif; other site 1208660013223 Walker B; other site 1208660013224 D-loop; other site 1208660013225 H-loop/switch region; other site 1208660013226 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1208660013227 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660013228 Walker A/P-loop; other site 1208660013229 ATP binding site [chemical binding]; other site 1208660013230 Q-loop/lid; other site 1208660013231 ABC transporter signature motif; other site 1208660013232 Walker B; other site 1208660013233 D-loop; other site 1208660013234 H-loop/switch region; other site 1208660013235 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1208660013236 Repair protein; Region: Repair_PSII; pfam04536 1208660013237 LemA family; Region: LemA; pfam04011 1208660013238 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1208660013239 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 1208660013240 ATP binding site [chemical binding]; other site 1208660013241 Mg++ binding site [ion binding]; other site 1208660013242 motif III; other site 1208660013243 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 1208660013244 nucleotide binding region [chemical binding]; other site 1208660013245 ATP-binding site [chemical binding]; other site 1208660013246 LysE type translocator; Region: LysE; cl00565 1208660013247 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1208660013248 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1208660013249 G1 box; other site 1208660013250 putative GEF interaction site [polypeptide binding]; other site 1208660013251 GTP/Mg2+ binding site [chemical binding]; other site 1208660013252 Switch I region; other site 1208660013253 G2 box; other site 1208660013254 G3 box; other site 1208660013255 Switch II region; other site 1208660013256 G4 box; other site 1208660013257 G5 box; other site 1208660013258 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 1208660013259 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1208660013260 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1208660013261 heme binding site [chemical binding]; other site 1208660013262 ferroxidase pore; other site 1208660013263 ferroxidase diiron center [ion binding]; other site 1208660013264 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1208660013265 EamA-like transporter family; Region: EamA; pfam00892 1208660013266 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1208660013267 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 1208660013268 dimerization interface [polypeptide binding]; other site 1208660013269 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1208660013270 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1208660013271 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1208660013272 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1208660013273 2-isopropylmalate synthase; Validated; Region: PRK03739 1208660013274 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1208660013275 active site 1208660013276 catalytic residues [active] 1208660013277 metal binding site [ion binding]; metal-binding site 1208660013278 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1208660013279 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1208660013280 Amidase; Region: Amidase; cl11426 1208660013282 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1208660013283 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1208660013284 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1208660013285 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660013286 dimer interface [polypeptide binding]; other site 1208660013287 conserved gate region; other site 1208660013288 putative PBP binding loops; other site 1208660013289 ABC-ATPase subunit interface; other site 1208660013290 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1208660013291 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660013292 dimer interface [polypeptide binding]; other site 1208660013293 conserved gate region; other site 1208660013294 putative PBP binding loops; other site 1208660013295 ABC-ATPase subunit interface; other site 1208660013297 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1208660013298 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1208660013299 active site 1208660013300 metal binding site [ion binding]; metal-binding site 1208660013301 hexamer interface [polypeptide binding]; other site 1208660013302 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1208660013303 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1208660013304 Walker A/P-loop; other site 1208660013305 ATP binding site [chemical binding]; other site 1208660013306 Q-loop/lid; other site 1208660013307 ABC transporter signature motif; other site 1208660013308 Walker B; other site 1208660013309 D-loop; other site 1208660013310 H-loop/switch region; other site 1208660013311 TOBE domain; Region: TOBE_2; pfam08402 1208660013312 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1208660013313 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1208660013314 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660013315 dimer interface [polypeptide binding]; other site 1208660013316 conserved gate region; other site 1208660013317 putative PBP binding loops; other site 1208660013318 ABC-ATPase subunit interface; other site 1208660013319 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1208660013320 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660013321 dimer interface [polypeptide binding]; other site 1208660013322 conserved gate region; other site 1208660013323 putative PBP binding loops; other site 1208660013324 ABC-ATPase subunit interface; other site 1208660013325 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 1208660013326 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1208660013327 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1208660013328 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1208660013329 active site 1208660013330 HIGH motif; other site 1208660013331 KMSK motif region; other site 1208660013332 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1208660013333 tRNA binding surface [nucleotide binding]; other site 1208660013334 anticodon binding site; other site 1208660013335 Sporulation related domain; Region: SPOR; pfam05036 1208660013336 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 1208660013337 catalytic residues [active] 1208660013338 hinge region; other site 1208660013339 alpha helical domain; other site 1208660013340 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1208660013341 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 1208660013342 homodimer interface [polypeptide binding]; other site 1208660013343 substrate-cofactor binding pocket; other site 1208660013344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660013345 catalytic residue [active] 1208660013346 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1208660013347 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1208660013348 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1208660013349 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1208660013350 DNA binding residues [nucleotide binding] 1208660013351 putative dimer interface [polypeptide binding]; other site 1208660013352 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1208660013353 isovaleryl-CoA dehydrogenase; Region: PLN02519 1208660013354 substrate binding site [chemical binding]; other site 1208660013355 FAD binding site [chemical binding]; other site 1208660013356 catalytic base [active] 1208660013357 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1208660013358 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 1208660013359 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1208660013360 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 1208660013361 dimer interface [polypeptide binding]; other site 1208660013362 active site 1208660013363 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1208660013364 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1208660013366 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1208660013367 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 1208660013368 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 1208660013369 inhibitor-cofactor binding pocket; inhibition site 1208660013370 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660013371 catalytic residue [active] 1208660013372 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660013373 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 1208660013374 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1208660013375 active site 1208660013376 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1208660013377 dimer interface [polypeptide binding]; other site 1208660013378 substrate binding site [chemical binding]; other site 1208660013379 catalytic residue [active] 1208660013380 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1208660013381 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1208660013382 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 1208660013383 DctM-like transporters; Region: DctM; pfam06808 1208660013384 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1208660013385 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 1208660013386 N-terminal plug; other site 1208660013387 ligand-binding site [chemical binding]; other site 1208660013388 Protein of unknown function (DUF494); Region: DUF494; pfam04361 1208660013389 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 1208660013390 active site 1208660013391 HIGH motif; other site 1208660013392 nucleotide binding site [chemical binding]; other site 1208660013393 active site 1208660013394 KMSKS motif; other site 1208660013396 DNA topoisomerase III; Validated; Region: PRK08173 1208660013397 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 1208660013398 active site 1208660013399 putative interdomain interaction site [polypeptide binding]; other site 1208660013400 putative metal-binding site [ion binding]; other site 1208660013401 putative nucleotide binding site [chemical binding]; other site 1208660013402 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 1208660013403 domain I; other site 1208660013404 DNA binding groove [nucleotide binding] 1208660013405 phosphate binding site [ion binding]; other site 1208660013406 domain II; other site 1208660013407 domain III; other site 1208660013408 nucleotide binding site [chemical binding]; other site 1208660013409 catalytic site [active] 1208660013410 domain IV; other site 1208660013411 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1208660013412 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1208660013413 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1208660013414 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 1208660013415 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1208660013416 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208660013417 Walker A/P-loop; other site 1208660013418 ATP binding site [chemical binding]; other site 1208660013419 Q-loop/lid; other site 1208660013420 ABC transporter signature motif; other site 1208660013421 Walker B; other site 1208660013422 D-loop; other site 1208660013423 H-loop/switch region; other site 1208660013424 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208660013425 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660013426 dimer interface [polypeptide binding]; other site 1208660013427 conserved gate region; other site 1208660013428 putative PBP binding loops; other site 1208660013429 ABC-ATPase subunit interface; other site 1208660013430 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 1208660013431 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1208660013432 NAD(P) binding site [chemical binding]; other site 1208660013433 active site 1208660013434 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1208660013435 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 1208660013436 NAD(P) binding site [chemical binding]; other site 1208660013437 catalytic residues [active] 1208660013438 catalytic residues [active] 1208660013440 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 1208660013441 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1208660013442 PYR/PP interface [polypeptide binding]; other site 1208660013443 dimer interface [polypeptide binding]; other site 1208660013444 TPP binding site [chemical binding]; other site 1208660013445 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1208660013446 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 1208660013447 TPP-binding site [chemical binding]; other site 1208660013448 dimer interface [polypeptide binding]; other site 1208660013449 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1208660013450 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 1208660013451 putative DNA binding site [nucleotide binding]; other site 1208660013452 putative Zn2+ binding site [ion binding]; other site 1208660013453 AsnC family; Region: AsnC_trans_reg; pfam01037 1208660013454 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1208660013455 Proteins containing SET domain [General function prediction only]; Region: COG2940 1208660013456 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 1208660013457 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK00014 1208660013458 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 1208660013459 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 1208660013460 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 1208660013462 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 1208660013463 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1208660013464 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1208660013465 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1208660013466 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1208660013467 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 1208660013468 active site residue [active] 1208660013469 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1208660013470 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1208660013472 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1208660013473 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 1208660013474 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1208660013475 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 1208660013476 active site 1208660013477 substrate binding site [chemical binding]; other site 1208660013478 FMN binding site [chemical binding]; other site 1208660013479 putative catalytic residues [active] 1208660013480 acylphosphatase; Provisional; Region: PRK14424 1208660013481 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1208660013482 amidase; Provisional; Region: PRK07486 1208660013483 Amidase; Region: Amidase; pfam01425 1208660013484 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1208660013485 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1208660013486 Bacterial transcriptional regulator; Region: IclR; pfam01614 1208660013487 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1208660013488 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 1208660013489 ATP binding site [chemical binding]; other site 1208660013490 Mg2+ binding site [ion binding]; other site 1208660013491 G-X-G motif; other site 1208660013492 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 1208660013493 anchoring element; other site 1208660013494 dimer interface [polypeptide binding]; other site 1208660013495 ATP binding site [chemical binding]; other site 1208660013496 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 1208660013497 active site 1208660013498 putative metal-binding site [ion binding]; other site 1208660013499 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1208660013500 DNA polymerase III subunit beta; Validated; Region: PRK05643 1208660013501 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 1208660013502 putative DNA binding surface [nucleotide binding]; other site 1208660013503 dimer interface [polypeptide binding]; other site 1208660013504 beta-clamp/clamp loader binding surface; other site 1208660013505 beta-clamp/translesion DNA polymerase binding surface; other site 1208660013506 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1208660013507 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1208660013508 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 1208660013509 Walker A motif; other site 1208660013510 ATP binding site [chemical binding]; other site 1208660013511 Walker B motif; other site 1208660013512 arginine finger; other site 1208660013513 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 1208660013514 DnaA box-binding interface [nucleotide binding]; other site 1208660013515 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1208660013516 ribonuclease P; Reviewed; Region: rnpA; PRK00038 1208660013517 Haemolytic domain; Region: Haemolytic; pfam01809 1208660013518 membrane protein insertase; Provisional; Region: PRK01318 1208660013519 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1208660013520 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1208660013521 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1208660013522 tetramer interface [polypeptide binding]; other site 1208660013523 heme binding pocket [chemical binding]; other site 1208660013524 NADPH binding site [chemical binding]; other site 1208660013525 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1208660013526 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660013527 putative PBP binding loops; other site 1208660013528 ABC-ATPase subunit interface; other site 1208660013529 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1208660013530 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1208660013531 Walker A/P-loop; other site 1208660013532 ATP binding site [chemical binding]; other site 1208660013533 Q-loop/lid; other site 1208660013534 ABC transporter signature motif; other site 1208660013535 Walker B; other site 1208660013536 D-loop; other site 1208660013537 H-loop/switch region; other site 1208660013538 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1208660013539 NMT1-like family; Region: NMT1_2; pfam13379 1208660013540 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1208660013541 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 1208660013542 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1208660013543 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1208660013544 metal binding site [ion binding]; metal-binding site 1208660013545 putative dimer interface [polypeptide binding]; other site 1208660013546 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 1208660013547 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1208660013548 Walker A/P-loop; other site 1208660013549 ATP binding site [chemical binding]; other site 1208660013550 Q-loop/lid; other site 1208660013551 ABC transporter signature motif; other site 1208660013552 Walker B; other site 1208660013553 D-loop; other site 1208660013554 H-loop/switch region; other site 1208660013555 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1208660013557 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1208660013558 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660013559 dimer interface [polypeptide binding]; other site 1208660013560 conserved gate region; other site 1208660013561 putative PBP binding loops; other site 1208660013562 ABC-ATPase subunit interface; other site 1208660013563 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1208660013564 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1208660013565 dimer interface [polypeptide binding]; other site 1208660013566 conserved gate region; other site 1208660013567 ABC-ATPase subunit interface; other site 1208660013568 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1208660013569 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 1208660013570 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1208660013571 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1208660013572 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1208660013573 G1 box; other site 1208660013574 GTP/Mg2+ binding site [chemical binding]; other site 1208660013575 Switch I region; other site 1208660013576 G2 box; other site 1208660013577 Switch II region; other site 1208660013578 G3 box; other site 1208660013579 G4 box; other site 1208660013580 G5 box; other site 1208660013581 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1208660013582 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1208660013583 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 1208660013584 active site 1208660013585 phosphorylation site [posttranslational modification] 1208660013586 intermolecular recognition site; other site 1208660013587 dimerization interface [polypeptide binding]; other site 1208660013588 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 1208660013589 DNA binding site [nucleotide binding] 1208660013590 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1208660013591 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1208660013592 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 1208660013593 dimer interface [polypeptide binding]; other site 1208660013594 phosphorylation site [posttranslational modification] 1208660013595 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 1208660013596 ATP binding site [chemical binding]; other site 1208660013597 Mg2+ binding site [ion binding]; other site 1208660013598 G-X-G motif; other site 1208660013599 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1208660013600 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1208660013601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1208660013602 methionine aminotransferase; Validated; Region: PRK09082 1208660013603 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 1208660013604 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1208660013605 homodimer interface [polypeptide binding]; other site 1208660013606 catalytic residue [active] 1208660013607 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 1208660013608 DNA-binding site [nucleotide binding]; DNA binding site 1208660013609 RNA-binding motif; other site 1208660013610 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1208660013611 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 1208660013612 catalytic residues [active] 1208660013613 catalytic nucleophile [active] 1208660013614 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; cl17393 1208660013615 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1208660013616 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 1208660013617 P-loop; other site 1208660013618 Magnesium ion binding site [ion binding]; other site 1208660013619 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1208660013620 Type IV secretion system proteins; Region: T4SS; pfam07996 1208660013621 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1208660013622 PemK-like protein; Region: PemK; cl00995 1208660013623 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877