-- dump date 20140619_003917 -- class Genbank::misc_feature -- table misc_feature_note -- id note 568706000001 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 568706000002 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 568706000003 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 568706000004 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 568706000005 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 568706000006 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 568706000007 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 568706000008 P-loop; other site 568706000009 Magnesium ion binding site [ion binding]; other site 568706000010 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 568706000011 Magnesium ion binding site [ion binding]; other site 568706000012 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568706000013 Coenzyme A binding pocket [chemical binding]; other site 568706000014 ParB-like nuclease domain; Region: ParB; smart00470 568706000015 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 568706000017 elongation factor Tu; Reviewed; Region: PRK00049 568706000018 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 568706000019 G1 box; other site 568706000020 GEF interaction site [polypeptide binding]; other site 568706000021 GTP/Mg2+ binding site [chemical binding]; other site 568706000022 Switch I region; other site 568706000023 G2 box; other site 568706000024 G3 box; other site 568706000025 Switch II region; other site 568706000026 G4 box; other site 568706000027 G5 box; other site 568706000028 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 568706000029 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 568706000030 Antibiotic Binding Site [chemical binding]; other site 568706000031 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 568706000032 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 568706000033 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 568706000034 putative homodimer interface [polypeptide binding]; other site 568706000035 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 568706000036 heterodimer interface [polypeptide binding]; other site 568706000037 homodimer interface [polypeptide binding]; other site 568706000038 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 568706000039 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 568706000040 23S rRNA interface [nucleotide binding]; other site 568706000041 L7/L12 interface [polypeptide binding]; other site 568706000042 putative thiostrepton binding site; other site 568706000043 L25 interface [polypeptide binding]; other site 568706000044 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 568706000045 mRNA/rRNA interface [nucleotide binding]; other site 568706000046 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 568706000047 23S rRNA interface [nucleotide binding]; other site 568706000048 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 568706000049 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 568706000050 core dimer interface [polypeptide binding]; other site 568706000051 peripheral dimer interface [polypeptide binding]; other site 568706000052 L10 interface [polypeptide binding]; other site 568706000053 L11 interface [polypeptide binding]; other site 568706000054 putative EF-Tu interaction site [polypeptide binding]; other site 568706000055 putative EF-G interaction site [polypeptide binding]; other site 568706000056 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 568706000057 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 568706000058 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 568706000059 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 568706000060 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 568706000061 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 568706000062 RPB3 interaction site [polypeptide binding]; other site 568706000063 RPB1 interaction site [polypeptide binding]; other site 568706000064 RPB11 interaction site [polypeptide binding]; other site 568706000065 RPB10 interaction site [polypeptide binding]; other site 568706000066 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 568706000067 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 568706000068 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 568706000069 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 568706000070 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 568706000071 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 568706000072 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 568706000073 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 568706000074 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 568706000075 DNA binding site [nucleotide binding] 568706000076 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 568706000077 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 568706000078 substrate binding site [chemical binding]; other site 568706000079 activation loop (A-loop); other site 568706000081 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 568706000082 FecR protein; Region: FecR; pfam04773 568706000083 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568706000084 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 568706000085 active site 568706000086 phosphorylation site [posttranslational modification] 568706000087 intermolecular recognition site; other site 568706000088 dimerization interface [polypeptide binding]; other site 568706000089 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 568706000090 DNA binding site [nucleotide binding] 568706000091 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568706000092 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 568706000093 active site 568706000094 phosphorylation site [posttranslational modification] 568706000095 intermolecular recognition site; other site 568706000096 dimerization interface [polypeptide binding]; other site 568706000097 DNA binding site [nucleotide binding] 568706000098 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 568706000099 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000100 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000101 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000102 Integrase core domain; Region: rve; pfam00665 568706000103 Integrase core domain; Region: rve_3; pfam13683 568706000104 Methyltransferase domain; Region: Methyltransf_31; pfam13847 568706000105 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 568706000106 S-adenosylmethionine binding site [chemical binding]; other site 568706000107 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 568706000108 salt bridge; other site 568706000109 non-specific DNA binding site [nucleotide binding]; other site 568706000110 sequence-specific DNA binding site [nucleotide binding]; other site 568706000111 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 568706000112 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 568706000113 minor groove reading motif; other site 568706000114 helix-hairpin-helix signature motif; other site 568706000115 substrate binding pocket [chemical binding]; other site 568706000116 active site 568706000117 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 568706000118 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 568706000119 DNA binding and oxoG recognition site [nucleotide binding] 568706000120 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 568706000121 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 568706000122 dimer interface [polypeptide binding]; other site 568706000123 PYR/PP interface [polypeptide binding]; other site 568706000124 TPP binding site [chemical binding]; other site 568706000125 substrate binding site [chemical binding]; other site 568706000126 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 568706000127 TPP-binding site; other site 568706000128 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 568706000129 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 568706000130 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 568706000131 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 568706000132 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706000133 Walker A/P-loop; other site 568706000134 ATP binding site [chemical binding]; other site 568706000135 Q-loop/lid; other site 568706000136 ABC transporter signature motif; other site 568706000137 Walker B; other site 568706000138 D-loop; other site 568706000139 H-loop/switch region; other site 568706000140 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 568706000141 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 568706000142 substrate binding pocket [chemical binding]; other site 568706000143 membrane-bound complex binding site; other site 568706000144 hinge residues; other site 568706000145 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 568706000146 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 568706000147 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706000148 dimer interface [polypeptide binding]; other site 568706000149 conserved gate region; other site 568706000150 putative PBP binding loops; other site 568706000151 ABC-ATPase subunit interface; other site 568706000152 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706000153 dimer interface [polypeptide binding]; other site 568706000154 conserved gate region; other site 568706000155 putative PBP binding loops; other site 568706000156 ABC-ATPase subunit interface; other site 568706000157 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 568706000158 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 568706000159 Walker A/P-loop; other site 568706000160 ATP binding site [chemical binding]; other site 568706000161 Q-loop/lid; other site 568706000162 ABC transporter signature motif; other site 568706000163 Walker B; other site 568706000164 D-loop; other site 568706000165 H-loop/switch region; other site 568706000166 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706000167 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 568706000168 glycerol kinase; Provisional; Region: glpK; PRK00047 568706000169 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 568706000170 N- and C-terminal domain interface [polypeptide binding]; other site 568706000171 active site 568706000172 MgATP binding site [chemical binding]; other site 568706000173 catalytic site [active] 568706000174 metal binding site [ion binding]; metal-binding site 568706000175 glycerol binding site [chemical binding]; other site 568706000176 homotetramer interface [polypeptide binding]; other site 568706000177 homodimer interface [polypeptide binding]; other site 568706000178 FBP binding site [chemical binding]; other site 568706000179 protein IIAGlc interface [polypeptide binding]; other site 568706000180 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 568706000181 putative substrate translocation pore; other site 568706000182 Major Facilitator Superfamily; Region: MFS_1; pfam07690 568706000183 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 568706000184 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 568706000185 Pantoate-beta-alanine ligase; Region: PanC; cd00560 568706000186 pantoate--beta-alanine ligase; Region: panC; TIGR00018 568706000187 active site 568706000188 ATP-binding site [chemical binding]; other site 568706000189 pantoate-binding site; other site 568706000190 HXXH motif; other site 568706000191 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 568706000192 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 568706000193 DNA binding residues [nucleotide binding] 568706000194 dimerization interface [polypeptide binding]; other site 568706000195 NlpE N-terminal domain; Region: NlpE; pfam04170 568706000196 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 568706000197 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 568706000198 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 568706000199 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 568706000200 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 568706000201 CoA-binding site [chemical binding]; other site 568706000202 ATP-binding [chemical binding]; other site 568706000203 hypothetical protein; Provisional; Region: PRK05287 568706000204 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 568706000205 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 568706000206 HlyD family secretion protein; Region: HlyD_3; pfam13437 568706000207 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 568706000208 Protein export membrane protein; Region: SecD_SecF; cl14618 568706000209 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 568706000210 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 568706000211 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000212 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000213 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000214 Integrase core domain; Region: rve; pfam00665 568706000215 Integrase core domain; Region: rve_3; pfam13683 568706000216 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000217 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000218 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 568706000219 Integrase core domain; Region: rve; pfam00665 568706000220 Integrase core domain; Region: rve_3; pfam13683 568706000221 hypothetical protein; Provisional; Region: PRK08999 568706000222 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 568706000223 active site 568706000224 8-oxo-dGMP binding site [chemical binding]; other site 568706000225 nudix motif; other site 568706000226 metal binding site [ion binding]; metal-binding site 568706000227 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 568706000228 active site 568706000229 thiamine phosphate binding site [chemical binding]; other site 568706000230 pyrophosphate binding site [ion binding]; other site 568706000231 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 568706000232 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 568706000233 Walker A motif; other site 568706000234 ATP binding site [chemical binding]; other site 568706000235 Walker B motif; other site 568706000236 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 568706000237 heterotetramer interface [polypeptide binding]; other site 568706000238 active site pocket [active] 568706000239 cleavage site 568706000240 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000241 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000242 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000243 Integrase core domain; Region: rve; pfam00665 568706000244 Integrase core domain; Region: rve_3; pfam13683 568706000246 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 568706000247 dimer interface [polypeptide binding]; other site 568706000248 motif 1; other site 568706000249 active site 568706000250 motif 2; other site 568706000251 motif 3; other site 568706000252 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 568706000253 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 568706000254 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 568706000255 active site 568706000256 motif I; other site 568706000257 motif II; other site 568706000258 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 568706000259 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 568706000260 putative acyl-acceptor binding pocket; other site 568706000261 Protein of unknown function DUF45; Region: DUF45; pfam01863 568706000262 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 568706000263 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 568706000264 dimer interface [polypeptide binding]; other site 568706000265 active site 568706000266 metal binding site [ion binding]; metal-binding site 568706000267 glutathione binding site [chemical binding]; other site 568706000268 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 568706000269 active site 568706000270 catalytic residues [active] 568706000271 metal binding site [ion binding]; metal-binding site 568706000273 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000274 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000275 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000276 Integrase core domain; Region: rve; pfam00665 568706000277 Integrase core domain; Region: rve_3; pfam13683 568706000278 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000279 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000280 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000281 Integrase core domain; Region: rve; pfam00665 568706000282 Integrase core domain; Region: rve_3; pfam13683 568706000283 Uncharacterized conserved protein [Function unknown]; Region: COG2353 568706000284 Secretin and TonB N terminus short domain; Region: STN; smart00965 568706000285 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 568706000286 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 568706000287 N-terminal plug; other site 568706000288 ligand-binding site [chemical binding]; other site 568706000289 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 568706000290 FecR protein; Region: FecR; pfam04773 568706000292 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000293 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000294 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000295 Integrase core domain; Region: rve; pfam00665 568706000296 Integrase core domain; Region: rve_3; pfam13683 568706000297 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 568706000298 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 568706000299 NAD(P) binding pocket [chemical binding]; other site 568706000300 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 568706000301 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 568706000302 dimer interface [polypeptide binding]; other site 568706000303 active site 568706000304 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 568706000305 catalytic residues [active] 568706000306 substrate binding site [chemical binding]; other site 568706000307 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000308 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000309 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000310 Integrase core domain; Region: rve; pfam00665 568706000311 Integrase core domain; Region: rve_3; pfam13683 568706000312 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568706000313 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 568706000314 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706000315 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706000316 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 568706000317 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 568706000318 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 568706000319 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706000320 dimer interface [polypeptide binding]; other site 568706000321 conserved gate region; other site 568706000322 putative PBP binding loops; other site 568706000323 ABC-ATPase subunit interface; other site 568706000324 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 568706000325 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706000326 dimer interface [polypeptide binding]; other site 568706000327 conserved gate region; other site 568706000328 putative PBP binding loops; other site 568706000329 ABC-ATPase subunit interface; other site 568706000330 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 568706000331 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 568706000332 Walker A/P-loop; other site 568706000333 ATP binding site [chemical binding]; other site 568706000334 Q-loop/lid; other site 568706000335 ABC transporter signature motif; other site 568706000336 Walker B; other site 568706000337 D-loop; other site 568706000338 H-loop/switch region; other site 568706000339 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 568706000340 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 568706000341 Walker A/P-loop; other site 568706000342 ATP binding site [chemical binding]; other site 568706000343 Q-loop/lid; other site 568706000344 ABC transporter signature motif; other site 568706000345 Walker B; other site 568706000346 D-loop; other site 568706000347 H-loop/switch region; other site 568706000348 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 568706000349 amidase; Provisional; Region: PRK07487 568706000350 Amidase; Region: Amidase; cl11426 568706000351 aminotransferase; Validated; Region: PRK07678 568706000352 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 568706000353 inhibitor-cofactor binding pocket; inhibition site 568706000354 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706000355 catalytic residue [active] 568706000356 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 568706000357 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 568706000358 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 568706000359 tetramer interface [polypeptide binding]; other site 568706000360 active site 568706000361 Mg2+/Mn2+ binding site [ion binding]; other site 568706000362 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 568706000363 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 568706000364 ligand binding site [chemical binding]; other site 568706000365 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 568706000366 aromatic arch; other site 568706000367 DCoH dimer interaction site [polypeptide binding]; other site 568706000368 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 568706000369 DCoH tetramer interaction site [polypeptide binding]; other site 568706000370 substrate binding site [chemical binding]; other site 568706000371 hypothetical protein; Validated; Region: PRK09039 568706000372 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 568706000373 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 568706000374 Substrate binding site; other site 568706000375 metal-binding site 568706000376 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 568706000377 Phosphotransferase enzyme family; Region: APH; pfam01636 568706000378 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 568706000379 Organic solvent tolerance protein; Region: OstA_C; pfam04453 568706000380 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 568706000381 SurA N-terminal domain; Region: SurA_N; pfam09312 568706000382 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 568706000383 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 568706000384 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 568706000385 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 568706000386 S-adenosylmethionine binding site [chemical binding]; other site 568706000387 glycerate kinase; Region: TIGR00045 568706000388 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 568706000389 pyruvate kinase; Provisional; Region: PRK05826 568706000390 domain interfaces; other site 568706000391 active site 568706000392 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 568706000393 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 568706000395 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000396 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000397 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000398 Integrase core domain; Region: rve; pfam00665 568706000399 Integrase core domain; Region: rve_3; pfam13683 568706000400 Transcriptional regulators [Transcription]; Region: GntR; COG1802 568706000401 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706000402 DNA-binding site [nucleotide binding]; DNA binding site 568706000403 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 568706000404 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 568706000405 SepZ; Region: SepZ; pfam06066 568706000407 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 568706000408 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 568706000409 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 568706000410 NAD(P) binding site [chemical binding]; other site 568706000411 catalytic residues [active] 568706000412 Domain of unknown function (DUF336); Region: DUF336; pfam03928 568706000413 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 568706000414 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 568706000415 catalytic loop [active] 568706000416 iron binding site [ion binding]; other site 568706000417 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 568706000418 FAD binding pocket [chemical binding]; other site 568706000419 FAD binding motif [chemical binding]; other site 568706000420 phosphate binding motif [ion binding]; other site 568706000421 beta-alpha-beta structure motif; other site 568706000422 NAD binding pocket [chemical binding]; other site 568706000423 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 568706000424 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 568706000425 substrate binding pocket [chemical binding]; other site 568706000426 membrane-bound complex binding site; other site 568706000427 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 568706000428 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 568706000429 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000430 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000431 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000432 Integrase core domain; Region: rve; pfam00665 568706000433 Integrase core domain; Region: rve_3; pfam13683 568706000435 similar to conserved hypothetical protein (Pseudogene) 568706000436 Fatty acid desaturase; Region: FA_desaturase; pfam00487 568706000439 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000440 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000441 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000442 Integrase core domain; Region: rve; pfam00665 568706000443 Integrase core domain; Region: rve_3; pfam13683 568706000445 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 568706000446 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 568706000447 Phage terminase large subunit; Region: Terminase_3; cl12054 568706000448 Terminase-like family; Region: Terminase_6; pfam03237 568706000449 Transposase; Region: HTH_Tnp_1; cl17663 568706000450 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 568706000451 active site 568706000452 putative DNA-binding cleft [nucleotide binding]; other site 568706000453 dimer interface [polypeptide binding]; other site 568706000454 Helix-turn-helix domain; Region: HTH_36; pfam13730 568706000455 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 568706000456 NinB protein; Region: NinB; pfam05772 568706000458 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 568706000459 Predicted transcriptional regulator [Transcription]; Region: COG2932 568706000460 Catalytic site [active] 568706000461 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000462 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000463 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000464 Integrase core domain; Region: rve; pfam00665 568706000465 Integrase core domain; Region: rve_3; pfam13683 568706000466 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 568706000467 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 568706000468 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 568706000469 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 568706000470 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 568706000471 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 568706000472 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 568706000473 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 568706000474 Walker A/P-loop; other site 568706000475 ATP binding site [chemical binding]; other site 568706000476 Q-loop/lid; other site 568706000477 ABC transporter signature motif; other site 568706000478 Walker B; other site 568706000479 D-loop; other site 568706000480 H-loop/switch region; other site 568706000481 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 568706000482 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 568706000483 Walker A/P-loop; other site 568706000484 ATP binding site [chemical binding]; other site 568706000485 Q-loop/lid; other site 568706000486 ABC transporter signature motif; other site 568706000487 Walker B; other site 568706000488 D-loop; other site 568706000489 H-loop/switch region; other site 568706000490 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 568706000491 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 568706000492 TM-ABC transporter signature motif; other site 568706000493 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 568706000494 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 568706000495 TM-ABC transporter signature motif; other site 568706000496 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 568706000497 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706000498 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 568706000499 putative dimerization interface [polypeptide binding]; other site 568706000500 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 568706000501 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 568706000502 putative ligand binding site [chemical binding]; other site 568706000503 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 568706000504 Amidase; Region: Amidase; pfam01425 568706000505 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 568706000506 active site clefts [active] 568706000507 zinc binding site [ion binding]; other site 568706000508 dimer interface [polypeptide binding]; other site 568706000510 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000511 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000512 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000513 Integrase core domain; Region: rve; pfam00665 568706000514 Integrase core domain; Region: rve_3; pfam13683 568706000515 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 568706000516 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 568706000517 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 568706000518 NAD(P) binding site [chemical binding]; other site 568706000519 homodimer interface [polypeptide binding]; other site 568706000520 substrate binding site [chemical binding]; other site 568706000521 active site 568706000523 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000524 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000525 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000526 Integrase core domain; Region: rve; pfam00665 568706000527 Integrase core domain; Region: rve_3; pfam13683 568706000528 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 568706000529 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 568706000530 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 568706000531 Bacterial sugar transferase; Region: Bac_transf; pfam02397 568706000532 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 568706000533 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 568706000534 inhibitor-cofactor binding pocket; inhibition site 568706000535 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706000536 catalytic residue [active] 568706000537 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 568706000538 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 568706000539 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 568706000540 active site 568706000541 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 568706000542 homodimer interface [polypeptide binding]; other site 568706000543 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 568706000544 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 568706000545 inhibitor-cofactor binding pocket; inhibition site 568706000546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706000547 catalytic residue [active] 568706000548 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 568706000549 putative CoA binding site [chemical binding]; other site 568706000550 putative trimer interface [polypeptide binding]; other site 568706000551 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 568706000552 putative trimer interface [polypeptide binding]; other site 568706000553 putative active site [active] 568706000554 putative substrate binding site [chemical binding]; other site 568706000555 putative CoA binding site [chemical binding]; other site 568706000556 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 568706000557 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 568706000558 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 568706000559 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 568706000560 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 568706000561 putative active site [active] 568706000562 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 568706000563 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 568706000564 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 568706000565 pantothenate kinase; Reviewed; Region: PRK13328 568706000566 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 568706000567 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 568706000568 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 568706000569 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 568706000570 Permease; Region: Permease; pfam02405 568706000571 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 568706000572 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 568706000573 Walker A/P-loop; other site 568706000574 ATP binding site [chemical binding]; other site 568706000575 Q-loop/lid; other site 568706000576 ABC transporter signature motif; other site 568706000577 Walker B; other site 568706000578 D-loop; other site 568706000579 H-loop/switch region; other site 568706000581 Protein of unknown function (DUF330); Region: DUF330; cl01135 568706000582 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 568706000583 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000584 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000585 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000586 Integrase core domain; Region: rve; pfam00665 568706000587 Integrase core domain; Region: rve_3; pfam13683 568706000588 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 568706000589 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 568706000590 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 568706000591 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 568706000592 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 568706000593 homodimer interface [polypeptide binding]; other site 568706000594 substrate-cofactor binding pocket; other site 568706000595 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706000596 catalytic residue [active] 568706000597 hypothetical protein; Provisional; Region: PRK02047 568706000598 lipoate-protein ligase B; Provisional; Region: PRK14349 568706000599 lipoyl synthase; Provisional; Region: PRK05481 568706000600 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 568706000601 FeS/SAM binding site; other site 568706000602 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 568706000603 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 568706000604 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 568706000605 NADP binding site [chemical binding]; other site 568706000606 active site 568706000607 putative substrate binding site [chemical binding]; other site 568706000608 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 568706000609 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 568706000610 NAD binding site [chemical binding]; other site 568706000611 substrate binding site [chemical binding]; other site 568706000612 homodimer interface [polypeptide binding]; other site 568706000613 active site 568706000614 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000615 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000616 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000617 Integrase core domain; Region: rve; pfam00665 568706000618 Integrase core domain; Region: rve_3; pfam13683 568706000619 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 568706000620 non-specific DNA binding site [nucleotide binding]; other site 568706000621 salt bridge; other site 568706000622 sequence-specific DNA binding site [nucleotide binding]; other site 568706000623 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 568706000624 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 568706000625 Methyltransferase domain; Region: Methyltransf_11; pfam08241 568706000626 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 568706000628 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000629 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000630 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000631 Integrase core domain; Region: rve; pfam00665 568706000632 Integrase core domain; Region: rve_3; pfam13683 568706000633 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 568706000634 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 568706000635 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 568706000636 DNA binding site [nucleotide binding] 568706000637 active site 568706000638 Predicted methyltransferases [General function prediction only]; Region: COG0313 568706000639 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 568706000640 putative SAM binding site [chemical binding]; other site 568706000641 putative homodimer interface [polypeptide binding]; other site 568706000642 hypothetical protein; Provisional; Region: PRK14685 568706000643 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 568706000644 active site 568706000645 dimer interface [polypeptide binding]; other site 568706000646 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 568706000647 BON domain; Region: BON; pfam04972 568706000648 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 568706000649 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 568706000650 catalytic residues [active] 568706000651 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 568706000652 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 568706000653 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 568706000654 feedback inhibition sensing region; other site 568706000655 homohexameric interface [polypeptide binding]; other site 568706000656 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 568706000657 nucleotide binding site [chemical binding]; other site 568706000658 N-acetyl-L-glutamate binding site [chemical binding]; other site 568706000659 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 568706000660 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 568706000661 motif II; other site 568706000662 division inhibitor protein; Provisional; Region: slmA; PRK09480 568706000663 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568706000664 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 568706000665 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 568706000666 transmembrane helices; other site 568706000668 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 568706000669 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 568706000670 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 568706000671 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 568706000672 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 568706000673 rod shape-determining protein MreC; Provisional; Region: PRK13922 568706000674 rod shape-determining protein MreC; Region: MreC; pfam04085 568706000675 rod shape-determining protein MreB; Provisional; Region: PRK13927 568706000676 MreB and similar proteins; Region: MreB_like; cd10225 568706000677 nucleotide binding site [chemical binding]; other site 568706000678 Mg binding site [ion binding]; other site 568706000679 putative protofilament interaction site [polypeptide binding]; other site 568706000680 RodZ interaction site [polypeptide binding]; other site 568706000681 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 568706000682 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 568706000683 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 568706000684 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 568706000685 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 568706000686 GatB domain; Region: GatB_Yqey; smart00845 568706000687 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568706000688 active site 568706000689 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 568706000690 putative active site [active] 568706000691 putative catalytic site [active] 568706000692 putative DNA binding site [nucleotide binding]; other site 568706000693 putative phosphate binding site [ion binding]; other site 568706000694 metal binding site A [ion binding]; metal-binding site 568706000695 putative AP binding site [nucleotide binding]; other site 568706000696 putative metal binding site B [ion binding]; other site 568706000697 glutamate dehydrogenase; Provisional; Region: PRK09414 568706000698 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 568706000699 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 568706000700 NAD(P) binding site [chemical binding]; other site 568706000701 Predicted membrane protein [Function unknown]; Region: COG2860 568706000702 UPF0126 domain; Region: UPF0126; pfam03458 568706000703 UPF0126 domain; Region: UPF0126; pfam03458 568706000705 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000706 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000707 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000708 Integrase core domain; Region: rve; pfam00665 568706000709 Integrase core domain; Region: rve_3; pfam13683 568706000710 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 568706000711 RNA/DNA hybrid binding site [nucleotide binding]; other site 568706000712 active site 568706000713 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 568706000714 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 568706000715 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 568706000716 N-acetyl-D-glucosamine binding site [chemical binding]; other site 568706000717 catalytic residue [active] 568706000718 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 568706000719 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 568706000720 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 568706000721 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 568706000722 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 568706000723 NAD binding site [chemical binding]; other site 568706000724 homotetramer interface [polypeptide binding]; other site 568706000725 homodimer interface [polypeptide binding]; other site 568706000726 substrate binding site [chemical binding]; other site 568706000727 active site 568706000728 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706000729 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706000730 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706000731 OsmC-like protein; Region: OsmC; pfam02566 568706000732 Protein of unknown function (DUF533); Region: DUF533; pfam04391 568706000733 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 568706000734 putative metal binding site [ion binding]; other site 568706000735 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706000736 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000737 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000738 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000739 Integrase core domain; Region: rve; pfam00665 568706000740 Integrase core domain; Region: rve_3; pfam13683 568706000741 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 568706000742 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 568706000743 dimerization interface [polypeptide binding]; other site 568706000744 active site 568706000745 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 568706000746 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 568706000747 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 568706000748 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 568706000749 alpha subunit interface [polypeptide binding]; other site 568706000750 active site 568706000751 substrate binding site [chemical binding]; other site 568706000752 Fe binding site [ion binding]; other site 568706000753 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 568706000754 TM-ABC transporter signature motif; other site 568706000755 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 568706000756 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 568706000757 TM-ABC transporter signature motif; other site 568706000758 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 568706000759 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 568706000760 Walker A/P-loop; other site 568706000761 ATP binding site [chemical binding]; other site 568706000762 Q-loop/lid; other site 568706000763 ABC transporter signature motif; other site 568706000764 Walker B; other site 568706000765 D-loop; other site 568706000766 H-loop/switch region; other site 568706000767 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 568706000768 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 568706000769 Walker A/P-loop; other site 568706000770 ATP binding site [chemical binding]; other site 568706000771 Q-loop/lid; other site 568706000772 ABC transporter signature motif; other site 568706000773 Walker B; other site 568706000774 D-loop; other site 568706000775 H-loop/switch region; other site 568706000776 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 568706000777 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 568706000778 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 568706000779 putative ligand binding site [chemical binding]; other site 568706000780 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706000781 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706000782 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 568706000783 putative substrate binding pocket [chemical binding]; other site 568706000784 dimerization interface [polypeptide binding]; other site 568706000785 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 568706000786 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 568706000787 NAD(P) binding site [chemical binding]; other site 568706000788 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 568706000789 Amidase; Region: Amidase; cl11426 568706000790 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 568706000791 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 568706000792 FMN-binding pocket [chemical binding]; other site 568706000793 flavin binding motif; other site 568706000794 phosphate binding motif [ion binding]; other site 568706000795 beta-alpha-beta structure motif; other site 568706000796 NAD binding pocket [chemical binding]; other site 568706000797 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 568706000798 catalytic loop [active] 568706000799 iron binding site [ion binding]; other site 568706000800 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 568706000801 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 568706000802 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 568706000803 putative NADH binding site [chemical binding]; other site 568706000804 putative active site [active] 568706000805 nudix motif; other site 568706000806 putative metal binding site [ion binding]; other site 568706000807 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568706000808 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568706000809 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568706000810 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568706000811 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 568706000812 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 568706000813 NAD(P) binding site [chemical binding]; other site 568706000814 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 568706000815 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706000816 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 568706000817 enoyl-CoA hydratase; Provisional; Region: PRK06494 568706000818 substrate binding site [chemical binding]; other site 568706000819 oxyanion hole (OAH) forming residues; other site 568706000820 trimer interface [polypeptide binding]; other site 568706000822 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 568706000823 NMT1/THI5 like; Region: NMT1; pfam09084 568706000824 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 568706000825 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 568706000826 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706000827 ABC-ATPase subunit interface; other site 568706000828 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 568706000829 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706000830 DNA-binding site [nucleotide binding]; DNA binding site 568706000831 UTRA domain; Region: UTRA; cl17743 568706000832 NMT1-like family; Region: NMT1_2; pfam13379 568706000833 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 568706000834 membrane-bound complex binding site; other site 568706000835 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706000836 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 568706000837 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706000838 DNA-binding site [nucleotide binding]; DNA binding site 568706000839 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000840 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000841 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000842 Integrase core domain; Region: rve; pfam00665 568706000843 Integrase core domain; Region: rve_3; pfam13683 568706000844 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706000846 enoyl-CoA hydratase; Provisional; Region: PRK08252 568706000847 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 568706000848 substrate binding site [chemical binding]; other site 568706000849 oxyanion hole (OAH) forming residues; other site 568706000850 trimer interface [polypeptide binding]; other site 568706000851 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706000852 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 568706000853 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706000854 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 568706000855 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 568706000856 active site residue [active] 568706000857 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 568706000858 active site residue [active] 568706000859 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 568706000860 active site residue [active] 568706000861 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706000862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706000863 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 568706000864 putative dimerization interface [polypeptide binding]; other site 568706000865 hypothetical protein; Provisional; Region: PRK06154 568706000866 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 568706000867 PYR/PP interface [polypeptide binding]; other site 568706000868 dimer interface [polypeptide binding]; other site 568706000869 TPP binding site [chemical binding]; other site 568706000870 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 568706000871 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 568706000872 TPP-binding site; other site 568706000873 dimer interface [polypeptide binding]; other site 568706000874 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568706000875 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568706000878 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000879 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000880 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000881 Integrase core domain; Region: rve; pfam00665 568706000882 Integrase core domain; Region: rve_3; pfam13683 568706000884 LysR family transcriptional regulator; Provisional; Region: PRK14997 568706000885 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706000886 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 568706000887 putative effector binding pocket; other site 568706000888 putative dimerization interface [polypeptide binding]; other site 568706000889 Tir chaperone protein (CesT) family; Region: CesT; cl08444 568706000890 Protein of unknown function (DUF3120); Region: DUF3220; pfam11516 568706000893 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 568706000894 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 568706000895 RecT family; Region: RecT; pfam03837 568706000897 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000898 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000899 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000900 Integrase core domain; Region: rve; pfam00665 568706000901 Integrase core domain; Region: rve_3; pfam13683 568706000902 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 568706000903 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 568706000904 molybdopterin cofactor binding site; other site 568706000905 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 568706000906 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 568706000907 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 568706000908 putative molybdopterin cofactor binding site; other site 568706000909 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 568706000910 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 568706000911 FAD binding pocket [chemical binding]; other site 568706000912 FAD binding motif [chemical binding]; other site 568706000913 phosphate binding motif [ion binding]; other site 568706000914 beta-alpha-beta structure motif; other site 568706000915 NAD binding pocket [chemical binding]; other site 568706000916 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 568706000917 catalytic loop [active] 568706000918 iron binding site [ion binding]; other site 568706000919 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 568706000920 homotrimer interaction site [polypeptide binding]; other site 568706000921 putative active site [active] 568706000922 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706000923 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706000924 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 568706000925 putative effector binding pocket; other site 568706000926 putative dimerization interface [polypeptide binding]; other site 568706000928 mesaconyl-CoA isomerase; Region: mesacon_CoA_iso; TIGR04253 568706000929 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568706000930 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 568706000931 putative active site [active] 568706000932 putative catalytic site [active] 568706000933 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706000934 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706000935 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 568706000936 putative dimerization interface [polypeptide binding]; other site 568706000937 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568706000938 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568706000939 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000940 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000941 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000942 Integrase core domain; Region: rve; pfam00665 568706000943 Integrase core domain; Region: rve_3; pfam13683 568706000944 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 568706000945 dimerization interface [polypeptide binding]; other site 568706000946 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 568706000947 NAD binding site [chemical binding]; other site 568706000948 ligand binding site [chemical binding]; other site 568706000949 catalytic site [active] 568706000950 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 568706000951 dimerization domain [polypeptide binding]; other site 568706000952 dimer interface [polypeptide binding]; other site 568706000953 catalytic residues [active] 568706000954 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 568706000955 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 568706000956 MltA specific insert domain; Region: MltA; smart00925 568706000957 3D domain; Region: 3D; pfam06725 568706000958 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 568706000959 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 568706000960 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 568706000961 substrate binding site [chemical binding]; other site 568706000962 hexamer interface [polypeptide binding]; other site 568706000963 metal binding site [ion binding]; metal-binding site 568706000964 phosphoglycolate phosphatase; Provisional; Region: PRK13222 568706000965 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 568706000966 motif II; other site 568706000967 anthranilate synthase component I; Provisional; Region: PRK13565 568706000968 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 568706000969 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 568706000970 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 568706000971 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 568706000972 glutamine binding [chemical binding]; other site 568706000973 catalytic triad [active] 568706000974 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 568706000975 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 568706000976 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 568706000977 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 568706000978 active site 568706000979 ribulose/triose binding site [chemical binding]; other site 568706000980 phosphate binding site [ion binding]; other site 568706000981 substrate (anthranilate) binding pocket [chemical binding]; other site 568706000982 product (indole) binding pocket [chemical binding]; other site 568706000983 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706000984 Winged helix-turn helix; Region: HTH_29; pfam13551 568706000985 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706000986 Integrase core domain; Region: rve; pfam00665 568706000987 Integrase core domain; Region: rve_3; pfam13683 568706000988 short chain dehydrogenase; Provisional; Region: PRK06123 568706000989 classical (c) SDRs; Region: SDR_c; cd05233 568706000990 NAD(P) binding site [chemical binding]; other site 568706000991 active site 568706000992 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 568706000993 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 568706000994 putative catalytic residue [active] 568706000995 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 568706000996 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 568706000997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706000998 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 568706000999 dimerization interface [polypeptide binding]; other site 568706001000 substrate binding pocket [chemical binding]; other site 568706001001 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 568706001003 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001004 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001005 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001006 Integrase core domain; Region: rve; pfam00665 568706001007 Integrase core domain; Region: rve_3; pfam13683 568706001008 Transcriptional regulators [Transcription]; Region: GntR; COG1802 568706001009 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706001010 DNA-binding site [nucleotide binding]; DNA binding site 568706001011 FCD domain; Region: FCD; pfam07729 568706001012 acetolactate synthase catalytic subunit; Validated; Region: PRK06112 568706001013 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 568706001014 PYR/PP interface [polypeptide binding]; other site 568706001015 dimer interface [polypeptide binding]; other site 568706001016 TPP binding site [chemical binding]; other site 568706001017 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 568706001018 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 568706001019 TPP-binding site [chemical binding]; other site 568706001020 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 568706001021 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706001022 NAD(P) binding site [chemical binding]; other site 568706001023 active site 568706001024 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706001025 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 568706001026 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 568706001027 homodimer interface [polypeptide binding]; other site 568706001028 substrate-cofactor binding pocket; other site 568706001029 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706001030 catalytic residue [active] 568706001031 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 568706001032 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 568706001033 Walker A/P-loop; other site 568706001034 ATP binding site [chemical binding]; other site 568706001035 Q-loop/lid; other site 568706001036 ABC transporter signature motif; other site 568706001037 Walker B; other site 568706001038 D-loop; other site 568706001039 H-loop/switch region; other site 568706001040 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 568706001041 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706001042 putative PBP binding loops; other site 568706001043 ABC-ATPase subunit interface; other site 568706001045 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 568706001046 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 568706001047 substrate binding pocket [chemical binding]; other site 568706001048 membrane-bound complex binding site; other site 568706001049 hinge residues; other site 568706001050 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001051 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001052 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001053 Integrase core domain; Region: rve; pfam00665 568706001054 Integrase core domain; Region: rve_3; pfam13683 568706001055 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 568706001056 Transglycosylase; Region: Transgly; cl17702 568706001057 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 568706001058 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 568706001059 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 568706001060 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 568706001061 active site 568706001062 metal binding site [ion binding]; metal-binding site 568706001063 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 568706001064 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 568706001065 putative acyl-acceptor binding pocket; other site 568706001066 dihydroorotase; Provisional; Region: PRK07627 568706001067 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 568706001068 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 568706001069 active site 568706001070 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 568706001071 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 568706001072 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 568706001073 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 568706001074 hypothetical protein; Validated; Region: PRK00228 568706001075 Rubredoxin [Energy production and conversion]; Region: COG1773 568706001076 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 568706001077 iron binding site [ion binding]; other site 568706001078 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 568706001079 substrate binding site [chemical binding]; other site 568706001080 dimer interface [polypeptide binding]; other site 568706001081 ATP binding site [chemical binding]; other site 568706001082 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 568706001083 thiamine phosphate binding site [chemical binding]; other site 568706001084 active site 568706001085 pyrophosphate binding site [ion binding]; other site 568706001086 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 568706001087 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 568706001088 inhibitor-cofactor binding pocket; inhibition site 568706001089 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706001090 catalytic residue [active] 568706001091 Protein of unknown function (DUF342); Region: DUF342; pfam03961 568706001092 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 568706001093 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 568706001094 homotrimer interaction site [polypeptide binding]; other site 568706001095 putative active site [active] 568706001096 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 568706001097 active site 568706001098 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 568706001099 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 568706001100 acyl-activating enzyme (AAE) consensus motif; other site 568706001101 AMP binding site [chemical binding]; other site 568706001102 active site 568706001103 CoA binding site [chemical binding]; other site 568706001104 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 568706001105 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 568706001106 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 568706001107 active site 568706001108 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 568706001109 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 568706001110 substrate binding site [chemical binding]; other site 568706001111 oxyanion hole (OAH) forming residues; other site 568706001112 trimer interface [polypeptide binding]; other site 568706001113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706001114 NAD(P) binding site [chemical binding]; other site 568706001115 active site 568706001117 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 568706001118 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 568706001119 Walker A/P-loop; other site 568706001120 ATP binding site [chemical binding]; other site 568706001121 Q-loop/lid; other site 568706001122 ABC transporter signature motif; other site 568706001123 Walker B; other site 568706001124 D-loop; other site 568706001125 H-loop/switch region; other site 568706001126 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 568706001127 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 568706001128 Walker A/P-loop; other site 568706001129 ATP binding site [chemical binding]; other site 568706001130 Q-loop/lid; other site 568706001131 ABC transporter signature motif; other site 568706001132 Walker B; other site 568706001133 D-loop; other site 568706001134 H-loop/switch region; other site 568706001135 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 568706001136 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 568706001137 TM-ABC transporter signature motif; other site 568706001138 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 568706001139 TM-ABC transporter signature motif; other site 568706001140 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 568706001141 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 568706001142 putative ligand binding site [chemical binding]; other site 568706001143 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 568706001144 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 568706001145 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 568706001146 MarR family; Region: MarR; pfam01047 568706001147 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001148 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001149 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001150 Integrase core domain; Region: rve; pfam00665 568706001151 Integrase core domain; Region: rve_3; pfam13683 568706001152 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 568706001153 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 568706001154 Ligand Binding Site [chemical binding]; other site 568706001155 Dihydroneopterin aldolase; Region: FolB; pfam02152 568706001156 active site 568706001157 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 568706001158 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 568706001159 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 568706001160 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 568706001161 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 568706001162 protein binding site [polypeptide binding]; other site 568706001163 enoyl-CoA hydratase; Provisional; Region: PRK05862 568706001164 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 568706001165 substrate binding site [chemical binding]; other site 568706001166 oxyanion hole (OAH) forming residues; other site 568706001167 trimer interface [polypeptide binding]; other site 568706001168 Uncharacterized conserved protein [Function unknown]; Region: COG5361 568706001169 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 568706001170 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 568706001171 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 568706001172 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 568706001173 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 568706001174 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 568706001175 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 568706001176 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 568706001177 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 568706001178 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 568706001179 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 568706001180 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 568706001181 beta subunit interaction interface [polypeptide binding]; other site 568706001182 Walker A motif; other site 568706001183 ATP binding site [chemical binding]; other site 568706001184 Walker B motif; other site 568706001185 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 568706001186 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 568706001187 core domain interface [polypeptide binding]; other site 568706001188 delta subunit interface [polypeptide binding]; other site 568706001189 epsilon subunit interface [polypeptide binding]; other site 568706001190 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 568706001191 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 568706001192 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 568706001193 alpha subunit interaction interface [polypeptide binding]; other site 568706001194 Walker A motif; other site 568706001195 ATP binding site [chemical binding]; other site 568706001196 Walker B motif; other site 568706001197 inhibitor binding site; inhibition site 568706001198 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 568706001199 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 568706001200 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 568706001201 gamma subunit interface [polypeptide binding]; other site 568706001202 epsilon subunit interface [polypeptide binding]; other site 568706001203 LBP interface [polypeptide binding]; other site 568706001204 response regulator GlrR; Provisional; Region: PRK15115 568706001205 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 568706001206 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 568706001207 substrate binding site [chemical binding]; other site 568706001208 active site 568706001209 primosome assembly protein PriA; Validated; Region: PRK05580 568706001210 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 568706001211 ATP binding site [chemical binding]; other site 568706001212 putative Mg++ binding site [ion binding]; other site 568706001213 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 568706001214 Part of AAA domain; Region: AAA_19; pfam13245 568706001215 Family description; Region: UvrD_C_2; pfam13538 568706001216 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001217 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001218 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001219 Integrase core domain; Region: rve; pfam00665 568706001220 Integrase core domain; Region: rve_3; pfam13683 568706001221 hypothetical protein; Provisional; Region: PRK07338 568706001222 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 568706001223 metal binding site [ion binding]; metal-binding site 568706001224 dimer interface [polypeptide binding]; other site 568706001225 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 568706001227 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 568706001228 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706001229 dimer interface [polypeptide binding]; other site 568706001230 conserved gate region; other site 568706001231 putative PBP binding loops; other site 568706001232 ABC-ATPase subunit interface; other site 568706001233 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 568706001234 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706001235 dimer interface [polypeptide binding]; other site 568706001236 conserved gate region; other site 568706001237 putative PBP binding loops; other site 568706001238 ABC-ATPase subunit interface; other site 568706001239 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 568706001240 putative active site [active] 568706001241 Zn binding site [ion binding]; other site 568706001243 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 568706001244 putative ATP binding site [chemical binding]; other site 568706001245 putative substrate binding site [chemical binding]; other site 568706001246 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 568706001247 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 568706001248 substrate binding site [chemical binding]; other site 568706001249 oxyanion hole (OAH) forming residues; other site 568706001250 trimer interface [polypeptide binding]; other site 568706001251 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 568706001252 enoyl-CoA hydratase; Provisional; Region: PRK06688 568706001253 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 568706001254 substrate binding site [chemical binding]; other site 568706001255 oxyanion hole (OAH) forming residues; other site 568706001256 trimer interface [polypeptide binding]; other site 568706001257 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 568706001258 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 568706001259 FMN binding site [chemical binding]; other site 568706001260 substrate binding site [chemical binding]; other site 568706001261 putative catalytic residue [active] 568706001262 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568706001263 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568706001264 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 568706001265 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 568706001266 active site 568706001269 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001270 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001271 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001272 Integrase core domain; Region: rve; pfam00665 568706001273 Integrase core domain; Region: rve_3; pfam13683 568706001274 psiF repeat; Region: PsiF_repeat; pfam07769 568706001275 psiF repeat; Region: PsiF_repeat; pfam07769 568706001276 Putative cyclase; Region: Cyclase; pfam04199 568706001277 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 568706001278 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 568706001279 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 568706001280 YciI-like protein; Reviewed; Region: PRK12863 568706001281 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 568706001282 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 568706001283 Coenzyme A transferase; Region: CoA_trans; cl17247 568706001284 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 568706001285 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 568706001286 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706001287 short chain dehydrogenase; Provisional; Region: PRK07577 568706001288 classical (c) SDRs; Region: SDR_c; cd05233 568706001289 NAD(P) binding site [chemical binding]; other site 568706001290 active site 568706001291 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 568706001292 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK06130 568706001293 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 568706001294 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 568706001295 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 568706001296 catalytic triad [active] 568706001297 putative active site [active] 568706001298 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 568706001299 catalytic residues [active] 568706001300 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 568706001301 Autotransporter beta-domain; Region: Autotransporter; smart00869 568706001303 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 568706001304 Ligand Binding Site [chemical binding]; other site 568706001305 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 568706001306 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568706001307 Coenzyme A binding pocket [chemical binding]; other site 568706001308 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 568706001309 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001310 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001311 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001312 Integrase core domain; Region: rve; pfam00665 568706001313 Integrase core domain; Region: rve_3; pfam13683 568706001314 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 568706001315 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 568706001316 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 568706001317 NAD binding site [chemical binding]; other site 568706001318 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 568706001319 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 568706001320 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 568706001321 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 568706001322 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 568706001323 Cupin domain; Region: Cupin_2; pfam07883 568706001324 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 568706001325 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568706001326 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 568706001327 active site 568706001328 catalytic residues [active] 568706001329 metal binding site [ion binding]; metal-binding site 568706001330 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 568706001331 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 568706001332 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568706001333 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 568706001334 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 568706001335 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 568706001336 putative substrate translocation pore; other site 568706001337 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706001338 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706001339 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 568706001340 dimerization interface [polypeptide binding]; other site 568706001341 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 568706001342 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 568706001343 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 568706001344 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001345 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001346 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001347 Integrase core domain; Region: rve; pfam00665 568706001348 Integrase core domain; Region: rve_3; pfam13683 568706001350 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 568706001351 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 568706001352 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 568706001353 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 568706001354 dimer interface [polypeptide binding]; other site 568706001355 active site 568706001356 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 568706001357 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 568706001358 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 568706001359 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 568706001360 ATP-grasp domain; Region: ATP-grasp_4; cl17255 568706001361 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 568706001362 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 568706001363 carboxyltransferase (CT) interaction site; other site 568706001364 biotinylation site [posttranslational modification]; other site 568706001365 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 568706001366 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 568706001367 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 568706001368 inhibitor-cofactor binding pocket; inhibition site 568706001369 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706001370 catalytic residue [active] 568706001371 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706001372 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 568706001373 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 568706001374 dimer interface [polypeptide binding]; other site 568706001375 active site 568706001376 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 568706001377 substrate binding site [chemical binding]; other site 568706001378 catalytic residue [active] 568706001379 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 568706001380 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 568706001381 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 568706001382 DctM-like transporters; Region: DctM; pfam06808 568706001383 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 568706001384 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 568706001385 N-terminal plug; other site 568706001386 ligand-binding site [chemical binding]; other site 568706001387 Protein of unknown function (DUF494); Region: DUF494; pfam04361 568706001388 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 568706001389 active site 568706001390 HIGH motif; other site 568706001391 nucleotide binding site [chemical binding]; other site 568706001392 active site 568706001393 KMSKS motif; other site 568706001394 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 568706001395 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 568706001396 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 568706001397 DNA topoisomerase III; Validated; Region: PRK08173 568706001398 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 568706001399 active site 568706001400 putative interdomain interaction site [polypeptide binding]; other site 568706001401 putative metal-binding site [ion binding]; other site 568706001402 putative nucleotide binding site [chemical binding]; other site 568706001403 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 568706001404 domain I; other site 568706001405 DNA binding groove [nucleotide binding] 568706001406 phosphate binding site [ion binding]; other site 568706001407 domain II; other site 568706001408 domain III; other site 568706001409 nucleotide binding site [chemical binding]; other site 568706001410 catalytic site [active] 568706001411 domain IV; other site 568706001412 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 568706001413 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 568706001414 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 568706001415 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 568706001416 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 568706001417 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 568706001418 Walker A/P-loop; other site 568706001419 ATP binding site [chemical binding]; other site 568706001420 Q-loop/lid; other site 568706001421 ABC transporter signature motif; other site 568706001422 Walker B; other site 568706001423 D-loop; other site 568706001424 H-loop/switch region; other site 568706001425 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 568706001426 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706001427 dimer interface [polypeptide binding]; other site 568706001428 conserved gate region; other site 568706001429 putative PBP binding loops; other site 568706001430 ABC-ATPase subunit interface; other site 568706001431 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 568706001432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706001433 NAD(P) binding site [chemical binding]; other site 568706001434 active site 568706001435 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 568706001436 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 568706001437 NAD(P) binding site [chemical binding]; other site 568706001438 catalytic residues [active] 568706001439 catalytic residues [active] 568706001440 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 568706001441 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 568706001442 putative NAD(P) binding site [chemical binding]; other site 568706001443 active site 568706001444 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 568706001445 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 568706001446 PYR/PP interface [polypeptide binding]; other site 568706001447 dimer interface [polypeptide binding]; other site 568706001448 TPP binding site [chemical binding]; other site 568706001449 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 568706001450 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 568706001451 TPP-binding site [chemical binding]; other site 568706001452 dimer interface [polypeptide binding]; other site 568706001453 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 568706001454 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 568706001455 putative DNA binding site [nucleotide binding]; other site 568706001456 putative Zn2+ binding site [ion binding]; other site 568706001457 AsnC family; Region: AsnC_trans_reg; pfam01037 568706001458 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 568706001459 Proteins containing SET domain [General function prediction only]; Region: COG2940 568706001460 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 568706001461 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK00014 568706001462 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 568706001464 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001465 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001466 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001467 Integrase core domain; Region: rve; pfam00665 568706001468 Integrase core domain; Region: rve_3; pfam13683 568706001471 EamA-like transporter family; Region: EamA; pfam00892 568706001472 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 568706001473 EamA-like transporter family; Region: EamA; pfam00892 568706001474 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001475 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001476 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001477 Integrase core domain; Region: rve; pfam00665 568706001478 Integrase core domain; Region: rve_3; pfam13683 568706001480 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 568706001481 putative catalytic site [active] 568706001482 putative metal binding site [ion binding]; other site 568706001483 putative phosphate binding site [ion binding]; other site 568706001484 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 568706001485 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 568706001486 dimer interface [polypeptide binding]; other site 568706001487 anticodon binding site; other site 568706001488 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 568706001489 homodimer interface [polypeptide binding]; other site 568706001490 motif 1; other site 568706001491 active site 568706001492 motif 2; other site 568706001493 GAD domain; Region: GAD; pfam02938 568706001494 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 568706001495 motif 3; other site 568706001496 Uncharacterized conserved protein [Function unknown]; Region: COG2928 568706001497 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 568706001498 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 568706001500 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001501 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001502 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001503 Integrase core domain; Region: rve; pfam00665 568706001504 Integrase core domain; Region: rve_3; pfam13683 568706001506 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 568706001507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706001508 ATP-grasp domain; Region: ATP-grasp; pfam02222 568706001509 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 568706001510 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 568706001511 putative active site [active] 568706001512 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 568706001513 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 568706001514 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 568706001515 active site 568706001516 motif I; other site 568706001517 motif II; other site 568706001518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 568706001519 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 568706001520 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 568706001521 OstA-like protein; Region: OstA; pfam03968 568706001522 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 568706001523 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 568706001524 Walker A/P-loop; other site 568706001525 ATP binding site [chemical binding]; other site 568706001526 Q-loop/lid; other site 568706001527 ABC transporter signature motif; other site 568706001528 Walker B; other site 568706001529 D-loop; other site 568706001530 H-loop/switch region; other site 568706001531 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001532 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001533 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001534 Integrase core domain; Region: rve; pfam00665 568706001535 Integrase core domain; Region: rve_3; pfam13683 568706001536 succinic semialdehyde dehydrogenase; Region: PLN02278 568706001537 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 568706001538 tetramerization interface [polypeptide binding]; other site 568706001539 NAD(P) binding site [chemical binding]; other site 568706001540 catalytic residues [active] 568706001541 RTX toxin acyltransferase family; Region: HlyC; pfam02794 568706001542 Anthrax toxin LF subunit; Region: Anthrax_toxA; pfam03497 568706001543 RTX N-terminal domain; Region: RTX; pfam02382 568706001545 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 568706001546 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 568706001547 HlyD family secretion protein; Region: HlyD_3; pfam13437 568706001548 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 568706001549 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706001550 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706001551 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 568706001552 dimerization interface [polypeptide binding]; other site 568706001553 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001554 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001555 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001556 Integrase core domain; Region: rve; pfam00665 568706001557 Integrase core domain; Region: rve_3; pfam13683 568706001558 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 568706001559 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 568706001560 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 568706001561 Multicopper oxidase; Region: Cu-oxidase; pfam00394 568706001562 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 568706001563 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 568706001564 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 568706001565 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 568706001566 substrate binding site [chemical binding]; other site 568706001567 oxyanion hole (OAH) forming residues; other site 568706001568 trimer interface [polypeptide binding]; other site 568706001569 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568706001570 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568706001571 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706001572 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 568706001573 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706001574 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 568706001575 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 568706001576 Amidase; Region: Amidase; pfam01425 568706001577 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 568706001578 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 568706001579 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 568706001580 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 568706001581 Walker A/P-loop; other site 568706001582 ATP binding site [chemical binding]; other site 568706001583 Q-loop/lid; other site 568706001584 ABC transporter signature motif; other site 568706001585 Walker B; other site 568706001586 D-loop; other site 568706001587 H-loop/switch region; other site 568706001588 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 568706001589 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 568706001590 Walker A/P-loop; other site 568706001591 ATP binding site [chemical binding]; other site 568706001592 Q-loop/lid; other site 568706001593 ABC transporter signature motif; other site 568706001594 Walker B; other site 568706001595 D-loop; other site 568706001596 H-loop/switch region; other site 568706001597 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 568706001598 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 568706001599 TM-ABC transporter signature motif; other site 568706001600 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 568706001601 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 568706001602 TM-ABC transporter signature motif; other site 568706001603 Transcriptional regulators [Transcription]; Region: PurR; COG1609 568706001604 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 568706001605 DNA binding site [nucleotide binding] 568706001606 domain linker motif; other site 568706001607 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 568706001608 putative dimerization interface [polypeptide binding]; other site 568706001609 putative ligand binding site [chemical binding]; other site 568706001611 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 568706001612 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 568706001613 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 568706001614 substrate binding pocket [chemical binding]; other site 568706001615 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 568706001616 B12 binding site [chemical binding]; other site 568706001617 cobalt ligand [ion binding]; other site 568706001618 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 568706001619 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 568706001620 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 568706001621 N-terminal plug; other site 568706001622 ligand-binding site [chemical binding]; other site 568706001623 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 568706001624 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 568706001625 cobalamin binding residues [chemical binding]; other site 568706001626 putative BtuC binding residues; other site 568706001627 dimer interface [polypeptide binding]; other site 568706001628 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 568706001629 ThiS interaction site; other site 568706001630 putative active site [active] 568706001631 tetramer interface [polypeptide binding]; other site 568706001632 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 568706001633 dimer interface [polypeptide binding]; other site 568706001634 substrate binding site [chemical binding]; other site 568706001635 ATP binding site [chemical binding]; other site 568706001636 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 568706001637 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 568706001638 S-adenosylmethionine binding site [chemical binding]; other site 568706001639 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 568706001640 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 568706001641 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 568706001642 active site 568706001643 nucleotide binding site [chemical binding]; other site 568706001644 HIGH motif; other site 568706001645 KMSKS motif; other site 568706001646 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706001647 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706001648 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706001649 Domain of unknown function DUF20; Region: UPF0118; pfam01594 568706001650 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 568706001651 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 568706001652 voltage-gated potassium channel; Provisional; Region: PRK10537 568706001653 Ion channel; Region: Ion_trans_2; pfam07885 568706001654 TrkA-N domain; Region: TrkA_N; pfam02254 568706001655 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001656 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001657 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001658 Integrase core domain; Region: rve; pfam00665 568706001659 Integrase core domain; Region: rve_3; pfam13683 568706001660 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 568706001661 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706001662 Walker A/P-loop; other site 568706001663 ATP binding site [chemical binding]; other site 568706001664 Q-loop/lid; other site 568706001665 ABC transporter signature motif; other site 568706001666 Walker B; other site 568706001667 D-loop; other site 568706001668 H-loop/switch region; other site 568706001669 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 568706001670 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706001671 dimer interface [polypeptide binding]; other site 568706001672 conserved gate region; other site 568706001673 putative PBP binding loops; other site 568706001674 ABC-ATPase subunit interface; other site 568706001676 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 568706001677 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 568706001679 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 568706001680 Amidase; Region: Amidase; cl11426 568706001681 2-isopropylmalate synthase; Validated; Region: PRK03739 568706001682 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 568706001683 active site 568706001684 catalytic residues [active] 568706001685 metal binding site [ion binding]; metal-binding site 568706001686 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 568706001687 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 568706001688 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 568706001689 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 568706001690 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 568706001691 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706001692 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706001693 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 568706001694 dimerization interface [polypeptide binding]; other site 568706001696 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001697 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001698 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001699 Integrase core domain; Region: rve; pfam00665 568706001700 Integrase core domain; Region: rve_3; pfam13683 568706001702 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 568706001703 dinuclear metal binding motif [ion binding]; other site 568706001704 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 568706001705 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 568706001706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 568706001707 SCP-2 sterol transfer family; Region: SCP2; cl01225 568706001708 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 568706001709 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 568706001710 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 568706001711 S-adenosylmethionine binding site [chemical binding]; other site 568706001712 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 568706001713 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 568706001714 active site 568706001715 phosphorylation site [posttranslational modification] 568706001716 intermolecular recognition site; other site 568706001717 dimerization interface [polypeptide binding]; other site 568706001718 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 568706001719 DNA binding site [nucleotide binding] 568706001720 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 568706001721 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 568706001722 PAS domain; Region: PAS; smart00091 568706001723 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 568706001724 dimer interface [polypeptide binding]; other site 568706001725 phosphorylation site [posttranslational modification] 568706001726 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 568706001727 ATP binding site [chemical binding]; other site 568706001728 G-X-G motif; other site 568706001729 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 568706001730 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 568706001731 active site 568706001732 phosphorylation site [posttranslational modification] 568706001733 intermolecular recognition site; other site 568706001734 dimerization interface [polypeptide binding]; other site 568706001735 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 568706001736 DNA binding site [nucleotide binding] 568706001737 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 568706001738 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 568706001739 dimerization interface [polypeptide binding]; other site 568706001740 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 568706001741 dimer interface [polypeptide binding]; other site 568706001742 phosphorylation site [posttranslational modification] 568706001743 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 568706001744 ATP binding site [chemical binding]; other site 568706001745 G-X-G motif; other site 568706001746 Predicted metal-binding protein [General function prediction only]; Region: COG3019 568706001747 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 568706001748 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 568706001749 ligand binding site [chemical binding]; other site 568706001750 NAD binding site [chemical binding]; other site 568706001751 tetramer interface [polypeptide binding]; other site 568706001752 catalytic site [active] 568706001753 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 568706001754 L-serine binding site [chemical binding]; other site 568706001755 ACT domain interface; other site 568706001756 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706001757 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706001758 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 568706001759 putative dimerization interface [polypeptide binding]; other site 568706001760 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 568706001761 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 568706001762 putative metal binding site [ion binding]; other site 568706001763 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 568706001764 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 568706001765 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 568706001766 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 568706001767 putative active site [active] 568706001769 Tripartite tricarboxylate transporter family receptor; Region: TctC; pfam03401 568706001771 enoyl-CoA hydratase; Provisional; Region: PRK08290 568706001772 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 568706001773 substrate binding site [chemical binding]; other site 568706001774 oxyanion hole (OAH) forming residues; other site 568706001775 trimer interface [polypeptide binding]; other site 568706001776 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 568706001777 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 568706001778 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568706001779 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568706001780 Transcriptional regulators [Transcription]; Region: GntR; COG1802 568706001781 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706001782 DNA-binding site [nucleotide binding]; DNA binding site 568706001783 FCD domain; Region: FCD; pfam07729 568706001784 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 568706001785 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 568706001786 FAD binding domain; Region: FAD_binding_4; pfam01565 568706001787 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 568706001788 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 568706001789 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 568706001790 Cysteine-rich domain; Region: CCG; pfam02754 568706001791 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 568706001793 threonine dehydratase; Reviewed; Region: PRK09224 568706001794 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 568706001795 tetramer interface [polypeptide binding]; other site 568706001796 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706001797 catalytic residue [active] 568706001798 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 568706001799 putative Ile/Val binding site [chemical binding]; other site 568706001800 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 568706001801 putative Ile/Val binding site [chemical binding]; other site 568706001803 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001804 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001805 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001806 Integrase core domain; Region: rve; pfam00665 568706001807 Integrase core domain; Region: rve_3; pfam13683 568706001808 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 568706001810 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568706001811 active site 568706001812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706001813 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 568706001814 Walker A/P-loop; other site 568706001815 ATP binding site [chemical binding]; other site 568706001816 Q-loop/lid; other site 568706001817 ABC transporter signature motif; other site 568706001818 Walker B; other site 568706001819 D-loop; other site 568706001820 H-loop/switch region; other site 568706001821 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 568706001822 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706001823 Walker A/P-loop; other site 568706001824 ATP binding site [chemical binding]; other site 568706001825 Q-loop/lid; other site 568706001826 ABC transporter signature motif; other site 568706001827 Walker B; other site 568706001828 D-loop; other site 568706001829 H-loop/switch region; other site 568706001830 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 568706001831 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 568706001832 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 568706001833 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 568706001834 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 568706001835 Predicted transcriptional regulators [Transcription]; Region: COG1510 568706001836 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 568706001837 dimerization interface [polypeptide binding]; other site 568706001838 putative DNA binding site [nucleotide binding]; other site 568706001839 putative Zn2+ binding site [ion binding]; other site 568706001841 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001842 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001843 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001844 Integrase core domain; Region: rve; pfam00665 568706001845 Integrase core domain; Region: rve_3; pfam13683 568706001846 Transcriptional regulators [Transcription]; Region: FadR; COG2186 568706001847 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706001848 DNA-binding site [nucleotide binding]; DNA binding site 568706001849 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 568706001850 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 568706001851 FAD binding domain; Region: FAD_binding_4; pfam01565 568706001852 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 568706001853 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 568706001854 NAD(P) binding site [chemical binding]; other site 568706001855 catalytic residues [active] 568706001856 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 568706001857 ThiC-associated domain; Region: ThiC-associated; pfam13667 568706001858 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 568706001859 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 568706001860 HindIII restriction endonuclease; Region: RE_HindIII; pfam09518 568706001862 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001863 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001864 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001865 Integrase core domain; Region: rve; pfam00665 568706001866 Integrase core domain; Region: rve_3; pfam13683 568706001867 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 568706001868 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706001869 NAD(P) binding site [chemical binding]; other site 568706001870 active site 568706001872 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 568706001874 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706001875 DNA-binding site [nucleotide binding]; DNA binding site 568706001876 Transcriptional regulators [Transcription]; Region: GntR; COG1802 568706001877 FCD domain; Region: FCD; pfam07729 568706001878 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 568706001879 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 568706001880 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 568706001881 DctM-like transporters; Region: DctM; pfam06808 568706001882 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 568706001884 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706001885 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 568706001886 catalytic center binding site [active] 568706001887 ATP binding site [chemical binding]; other site 568706001888 poly(A) polymerase; Region: pcnB; TIGR01942 568706001889 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 568706001890 active site 568706001891 NTP binding site [chemical binding]; other site 568706001892 metal binding triad [ion binding]; metal-binding site 568706001893 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 568706001894 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 568706001895 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 568706001896 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 568706001897 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 568706001898 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 568706001899 Walker A motif; other site 568706001900 ATP binding site [chemical binding]; other site 568706001901 Walker B motif; other site 568706001902 arginine finger; other site 568706001903 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 568706001904 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 568706001905 dimerization interface [polypeptide binding]; other site 568706001906 putative ATP binding site [chemical binding]; other site 568706001907 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 568706001908 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 568706001909 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 568706001910 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 568706001911 ATP binding site [chemical binding]; other site 568706001912 Mg2+ binding site [ion binding]; other site 568706001913 G-X-G motif; other site 568706001914 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 568706001915 ATP binding site [chemical binding]; other site 568706001916 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 568706001917 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 568706001918 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 568706001919 AMIN domain; Region: AMIN; pfam11741 568706001920 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 568706001921 active site 568706001922 metal binding site [ion binding]; metal-binding site 568706001923 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 568706001924 fumarate hydratase; Reviewed; Region: fumC; PRK00485 568706001925 Class II fumarases; Region: Fumarase_classII; cd01362 568706001926 active site 568706001927 tetramer interface [polypeptide binding]; other site 568706001928 Predicted permeases [General function prediction only]; Region: COG0679 568706001929 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706001930 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 568706001931 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706001932 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 568706001933 dimerization interface [polypeptide binding]; other site 568706001934 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 568706001935 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 568706001936 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568706001937 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568706001938 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706001940 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001941 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001942 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001943 Integrase core domain; Region: rve; pfam00665 568706001944 Integrase core domain; Region: rve_3; pfam13683 568706001946 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 568706001948 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 568706001949 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 568706001950 dimer interface [polypeptide binding]; other site 568706001951 catalytic residues [active] 568706001952 urease subunit alpha; Reviewed; Region: ureC; PRK13207 568706001953 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 568706001954 subunit interactions [polypeptide binding]; other site 568706001955 active site 568706001956 flap region; other site 568706001957 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 568706001958 gamma-beta subunit interface [polypeptide binding]; other site 568706001959 alpha-beta subunit interface [polypeptide binding]; other site 568706001960 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 568706001961 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 568706001962 alpha-gamma subunit interface [polypeptide binding]; other site 568706001963 beta-gamma subunit interface [polypeptide binding]; other site 568706001964 UreD urease accessory protein; Region: UreD; cl00530 568706001967 Uncharacterized conserved protein [Function unknown]; Region: COG3791 568706001968 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 568706001969 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706001970 DNA-binding site [nucleotide binding]; DNA binding site 568706001971 UTRA domain; Region: UTRA; pfam07702 568706001972 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001973 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001974 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001975 Integrase core domain; Region: rve; pfam00665 568706001976 Integrase core domain; Region: rve_3; pfam13683 568706001978 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 568706001979 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706001980 Winged helix-turn helix; Region: HTH_29; pfam13551 568706001981 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706001982 Integrase core domain; Region: rve; pfam00665 568706001983 Integrase core domain; Region: rve_3; pfam13683 568706001984 membrane protein insertase; Provisional; Region: PRK01318 568706001985 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 568706001986 Haemolytic domain; Region: Haemolytic; pfam01809 568706001987 ribonuclease P; Reviewed; Region: rnpA; PRK00038 568706001988 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 568706001989 DnaA N-terminal domain; Region: DnaA_N; pfam11638 568706001990 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 568706001991 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 568706001992 Walker A motif; other site 568706001993 ATP binding site [chemical binding]; other site 568706001994 Walker B motif; other site 568706001995 arginine finger; other site 568706001996 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 568706001997 DnaA box-binding interface [nucleotide binding]; other site 568706001998 DNA polymerase III subunit beta; Validated; Region: PRK05643 568706001999 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 568706002000 putative DNA binding surface [nucleotide binding]; other site 568706002001 dimer interface [polypeptide binding]; other site 568706002002 beta-clamp/clamp loader binding surface; other site 568706002003 beta-clamp/translesion DNA polymerase binding surface; other site 568706002004 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 568706002005 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 568706002006 ATP binding site [chemical binding]; other site 568706002007 Mg2+ binding site [ion binding]; other site 568706002008 G-X-G motif; other site 568706002009 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 568706002010 anchoring element; other site 568706002011 dimer interface [polypeptide binding]; other site 568706002012 ATP binding site [chemical binding]; other site 568706002013 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 568706002014 active site 568706002015 putative metal-binding site [ion binding]; other site 568706002016 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 568706002017 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 568706002018 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 568706002019 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706002020 amidase; Provisional; Region: PRK07486 568706002021 Amidase; Region: Amidase; pfam01425 568706002022 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706002024 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 568706002025 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 568706002026 active site 568706002027 substrate binding site [chemical binding]; other site 568706002028 FMN binding site [chemical binding]; other site 568706002029 putative catalytic residues [active] 568706002030 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 568706002031 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 568706002032 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_5; cd06232 568706002033 putative active site [active] 568706002034 Zn binding site [ion binding]; other site 568706002035 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 568706002036 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 568706002037 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002038 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002039 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002040 Integrase core domain; Region: rve; pfam00665 568706002041 Integrase core domain; Region: rve_3; pfam13683 568706002042 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 568706002043 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 568706002044 [2Fe-2S] cluster binding site [ion binding]; other site 568706002045 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 568706002046 alpha subunit interface [polypeptide binding]; other site 568706002047 active site 568706002048 substrate binding site [chemical binding]; other site 568706002049 Fe binding site [ion binding]; other site 568706002050 Acyltransferase family; Region: Acyl_transf_3; pfam01757 568706002051 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 568706002052 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706002053 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 568706002054 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706002055 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706002056 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 568706002057 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 568706002058 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 568706002059 substrate binding pocket [chemical binding]; other site 568706002060 chain length determination region; other site 568706002061 substrate-Mg2+ binding site; other site 568706002062 catalytic residues [active] 568706002063 aspartate-rich region 1; other site 568706002064 active site lid residues [active] 568706002065 aspartate-rich region 2; other site 568706002066 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 568706002067 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 568706002068 TPP-binding site; other site 568706002069 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 568706002070 PYR/PP interface [polypeptide binding]; other site 568706002071 dimer interface [polypeptide binding]; other site 568706002072 TPP binding site [chemical binding]; other site 568706002073 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 568706002074 putative GTP cyclohydrolase; Provisional; Region: PRK13674 568706002075 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 568706002076 primosomal replication protein N; Reviewed; Region: PRK00036 568706002077 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 568706002078 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 568706002079 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 568706002080 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 568706002081 serine/threonine protein kinase; Provisional; Region: PRK14879 568706002082 replicative DNA helicase; Provisional; Region: PRK07004 568706002083 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 568706002084 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 568706002085 Walker A motif; other site 568706002086 ATP binding site [chemical binding]; other site 568706002087 Walker B motif; other site 568706002088 DNA binding loops [nucleotide binding] 568706002089 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 568706002090 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 568706002091 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 568706002092 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 568706002093 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 568706002094 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 568706002095 putative active site [active] 568706002096 PhoH-like protein; Region: PhoH; pfam02562 568706002097 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 568706002098 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 568706002099 catalytic triad [active] 568706002100 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 568706002101 aminotransferase; Validated; Region: PRK08175 568706002102 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 568706002103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706002104 homodimer interface [polypeptide binding]; other site 568706002105 catalytic residue [active] 568706002106 homoserine dehydrogenase; Provisional; Region: PRK06349 568706002107 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 568706002108 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 568706002109 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 568706002110 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 568706002111 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 568706002112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706002113 catalytic residue [active] 568706002114 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 568706002115 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002116 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002117 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002118 Integrase core domain; Region: rve; pfam00665 568706002119 Integrase core domain; Region: rve_3; pfam13683 568706002120 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 568706002123 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002124 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002125 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002126 Integrase core domain; Region: rve; pfam00665 568706002127 Integrase core domain; Region: rve_3; pfam13683 568706002128 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 568706002129 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 568706002130 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 568706002131 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 568706002132 Uncharacterized conserved protein [Function unknown]; Region: COG2835 568706002133 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 568706002134 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 568706002135 Ligand binding site; other site 568706002136 oligomer interface; other site 568706002137 adenylate kinase; Reviewed; Region: adk; PRK00279 568706002138 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 568706002139 AMP-binding site [chemical binding]; other site 568706002140 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 568706002141 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 568706002142 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 568706002143 NAD binding site [chemical binding]; other site 568706002144 homodimer interface [polypeptide binding]; other site 568706002145 homotetramer interface [polypeptide binding]; other site 568706002146 active site 568706002147 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 568706002148 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 568706002149 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 568706002150 FecR protein; Region: FecR; pfam04773 568706002151 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 568706002152 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 568706002154 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002155 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002156 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002157 Integrase core domain; Region: rve; pfam00665 568706002158 Integrase core domain; Region: rve_3; pfam13683 568706002159 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 568706002160 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 568706002161 generic binding surface II; other site 568706002162 generic binding surface I; other site 568706002163 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 568706002164 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 568706002165 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 568706002166 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 568706002167 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 568706002168 putative ion selectivity filter; other site 568706002169 putative pore gating glutamate residue; other site 568706002170 putative H+/Cl- coupling transport residue; other site 568706002171 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 568706002172 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 568706002173 dimer interface [polypeptide binding]; other site 568706002174 active site 568706002175 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 568706002176 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 568706002177 DNA-binding site [nucleotide binding]; DNA binding site 568706002178 RNA-binding motif; other site 568706002179 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 568706002180 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 568706002181 MG2 domain; Region: A2M_N; pfam01835 568706002182 Alpha-2-macroglobulin family; Region: A2M; pfam00207 568706002183 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 568706002184 surface patch; other site 568706002185 thioester region; other site 568706002186 specificity defining residues; other site 568706002187 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 568706002188 Transglycosylase; Region: Transgly; pfam00912 568706002189 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 568706002190 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 568706002191 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 568706002192 Clp amino terminal domain; Region: Clp_N; pfam02861 568706002193 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 568706002194 Walker A motif; other site 568706002195 ATP binding site [chemical binding]; other site 568706002196 Walker B motif; other site 568706002197 arginine finger; other site 568706002198 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 568706002199 Walker A motif; other site 568706002200 ATP binding site [chemical binding]; other site 568706002201 Walker B motif; other site 568706002202 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 568706002203 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 568706002204 Paraquat-inducible protein A; Region: PqiA; pfam04403 568706002205 Paraquat-inducible protein A; Region: PqiA; pfam04403 568706002206 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 568706002207 mce related protein; Region: MCE; pfam02470 568706002208 mce related protein; Region: MCE; pfam02470 568706002209 mce related protein; Region: MCE; pfam02470 568706002210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 568706002211 Protein of unknown function (DUF330); Region: DUF330; pfam03886 568706002212 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 568706002213 Proline dehydrogenase; Region: Pro_dh; pfam01619 568706002214 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 568706002215 Glutamate binding site [chemical binding]; other site 568706002216 NAD binding site [chemical binding]; other site 568706002217 catalytic residues [active] 568706002218 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002219 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002220 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002221 Integrase core domain; Region: rve; pfam00665 568706002222 Integrase core domain; Region: rve_3; pfam13683 568706002223 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 568706002224 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 568706002225 dimerization interface [polypeptide binding]; other site 568706002226 ligand binding site [chemical binding]; other site 568706002227 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 568706002228 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 568706002229 TM-ABC transporter signature motif; other site 568706002230 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 568706002231 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 568706002232 TM-ABC transporter signature motif; other site 568706002233 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 568706002234 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 568706002235 Walker A/P-loop; other site 568706002236 ATP binding site [chemical binding]; other site 568706002237 Q-loop/lid; other site 568706002238 ABC transporter signature motif; other site 568706002239 Walker B; other site 568706002240 D-loop; other site 568706002241 H-loop/switch region; other site 568706002242 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 568706002243 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 568706002244 Walker A/P-loop; other site 568706002245 ATP binding site [chemical binding]; other site 568706002246 Q-loop/lid; other site 568706002247 ABC transporter signature motif; other site 568706002248 Walker B; other site 568706002249 D-loop; other site 568706002250 H-loop/switch region; other site 568706002251 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 568706002252 Major Facilitator Superfamily; Region: MFS_1; pfam07690 568706002253 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 568706002254 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568706002255 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568706002258 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 568706002259 Nitrogen regulatory protein P-II; Region: P-II; smart00938 568706002260 Membrane fusogenic activity; Region: BMFP; pfam04380 568706002263 metabolite-proton symporter; Region: 2A0106; TIGR00883 568706002265 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 568706002266 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 568706002267 D-pathway; other site 568706002268 Putative ubiquinol binding site [chemical binding]; other site 568706002269 Low-spin heme (heme b) binding site [chemical binding]; other site 568706002270 Putative water exit pathway; other site 568706002271 Binuclear center (heme o3/CuB) [ion binding]; other site 568706002272 K-pathway; other site 568706002273 Putative proton exit pathway; other site 568706002274 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 568706002275 Subunit I/III interface [polypeptide binding]; other site 568706002276 Subunit III/IV interface [polypeptide binding]; other site 568706002277 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 568706002278 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 568706002279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706002280 NAD(P) binding site [chemical binding]; other site 568706002281 active site 568706002282 N-formylglutamate amidohydrolase; Region: FGase; cl01522 568706002283 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002284 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002285 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002286 Integrase core domain; Region: rve; pfam00665 568706002287 Integrase core domain; Region: rve_3; pfam13683 568706002288 threonine dehydratase; Provisional; Region: PRK07334 568706002289 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 568706002290 tetramer interface [polypeptide binding]; other site 568706002291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706002292 catalytic residue [active] 568706002293 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 568706002294 PIN domain; Region: PIN_3; pfam13470 568706002295 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 568706002296 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 568706002297 NAD(P) binding site [chemical binding]; other site 568706002298 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 568706002299 triosephosphate isomerase; Provisional; Region: PRK14567 568706002300 substrate binding site [chemical binding]; other site 568706002301 dimer interface [polypeptide binding]; other site 568706002302 catalytic triad [active] 568706002303 protein translocase, SecG subunit; Region: secG; TIGR00810 568706002304 BCCT family transporter; Region: BCCT; cl00569 568706002305 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706002306 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 568706002307 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706002308 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 568706002309 dimer interface [polypeptide binding]; other site 568706002310 Methylaspartate ammonia-lyase C-terminus; Region: MAAL_C; pfam07476 568706002311 active site 568706002312 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706002313 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 568706002314 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 568706002315 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 568706002316 active sites [active] 568706002317 tetramer interface [polypeptide binding]; other site 568706002318 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706002319 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706002320 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706002321 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706002322 short chain dehydrogenase; Provisional; Region: PRK08339 568706002323 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 568706002324 putative NAD(P) binding site [chemical binding]; other site 568706002325 putative active site [active] 568706002326 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706002327 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706002328 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 568706002329 putative dimerization interface [polypeptide binding]; other site 568706002330 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 568706002331 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 568706002332 homodimer interface [polypeptide binding]; other site 568706002333 substrate-cofactor binding pocket; other site 568706002334 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706002335 catalytic residue [active] 568706002336 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 568706002337 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 568706002338 active site 568706002339 Zn binding site [ion binding]; other site 568706002340 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706002341 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 568706002342 active site residue [active] 568706002343 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 568706002344 active site residue [active] 568706002345 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 568706002346 active site residue [active] 568706002347 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 568706002348 active site residue [active] 568706002349 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706002350 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 568706002351 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 568706002352 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 568706002353 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 568706002354 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 568706002355 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 568706002356 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 568706002357 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 568706002358 azurin; Region: azurin; TIGR02695 568706002359 Predicted transcriptional regulator [Transcription]; Region: COG2345 568706002360 Transcriptional regulator PadR-like family; Region: PadR; cl17335 568706002361 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 568706002362 multidrug efflux protein; Reviewed; Region: PRK09579 568706002363 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 568706002364 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 568706002365 HlyD family secretion protein; Region: HlyD_3; pfam13437 568706002366 Predicted transcriptional regulators [Transcription]; Region: COG1733 568706002367 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 568706002368 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002369 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002370 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002371 Integrase core domain; Region: rve; pfam00665 568706002372 Integrase core domain; Region: rve_3; pfam13683 568706002373 BCCT family transporter; Region: BCCT; cl00569 568706002374 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706002375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706002376 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 568706002377 dimerization interface [polypeptide binding]; other site 568706002378 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 568706002379 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 568706002380 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 568706002381 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 568706002382 active site 568706002383 metal binding site [ion binding]; metal-binding site 568706002384 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 568706002385 active site 568706002386 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 568706002387 CoenzymeA binding site [chemical binding]; other site 568706002388 subunit interaction site [polypeptide binding]; other site 568706002389 PHB binding site; other site 568706002391 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002392 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002393 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002394 Integrase core domain; Region: rve; pfam00665 568706002395 Integrase core domain; Region: rve_3; pfam13683 568706002396 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 568706002397 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 568706002398 putative active site [active] 568706002399 putative metal binding site [ion binding]; other site 568706002400 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 568706002401 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 568706002402 Uncharacterized conserved protein [Function unknown]; Region: COG1434 568706002403 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 568706002404 putative active site [active] 568706002405 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 568706002406 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 568706002407 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 568706002408 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 568706002409 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 568706002410 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706002411 Walker A/P-loop; other site 568706002412 ATP binding site [chemical binding]; other site 568706002413 Q-loop/lid; other site 568706002414 ABC transporter signature motif; other site 568706002415 Walker B; other site 568706002416 D-loop; other site 568706002417 H-loop/switch region; other site 568706002418 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 568706002419 putative substrate translocation pore; other site 568706002420 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568706002421 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568706002422 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 568706002423 Prephenate dehydratase; Region: PDT; pfam00800 568706002424 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 568706002425 ribonuclease G; Provisional; Region: PRK11712 568706002426 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 568706002427 homodimer interface [polypeptide binding]; other site 568706002428 oligonucleotide binding site [chemical binding]; other site 568706002429 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002430 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002431 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002432 Integrase core domain; Region: rve; pfam00665 568706002433 Integrase core domain; Region: rve_3; pfam13683 568706002434 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 568706002435 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 568706002436 Autotransporter beta-domain; Region: Autotransporter; pfam03797 568706002437 Maf-like protein; Region: Maf; pfam02545 568706002438 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 568706002439 active site 568706002440 dimer interface [polypeptide binding]; other site 568706002441 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 568706002442 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 568706002443 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 568706002444 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 568706002445 active site 568706002446 (T/H)XGH motif; other site 568706002447 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 568706002448 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 568706002449 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 568706002450 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 568706002451 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 568706002452 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 568706002453 hypothetical protein; Validated; Region: PRK00110 568706002454 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 568706002455 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 568706002456 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 568706002457 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 568706002458 aminotransferase; Provisional; Region: PRK06105 568706002459 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 568706002460 inhibitor-cofactor binding pocket; inhibition site 568706002461 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706002462 catalytic residue [active] 568706002463 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 568706002464 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 568706002465 putative ligand binding site [chemical binding]; other site 568706002466 NAD binding site [chemical binding]; other site 568706002467 dimerization interface [polypeptide binding]; other site 568706002468 catalytic site [active] 568706002469 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 568706002470 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 568706002471 NAD(P) binding site [chemical binding]; other site 568706002472 catalytic residues [active] 568706002473 EamA-like transporter family; Region: EamA; pfam00892 568706002474 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 568706002475 EamA-like transporter family; Region: EamA; pfam00892 568706002476 allantoate amidohydrolase; Reviewed; Region: PRK12893 568706002477 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 568706002478 active site 568706002479 metal binding site [ion binding]; metal-binding site 568706002480 dimer interface [polypeptide binding]; other site 568706002481 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 568706002482 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 568706002483 active site 568706002484 Zn binding site [ion binding]; other site 568706002485 Cupin domain; Region: Cupin_2; pfam07883 568706002486 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 568706002487 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 568706002488 inhibitor-cofactor binding pocket; inhibition site 568706002489 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706002490 catalytic residue [active] 568706002491 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002492 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002493 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002494 Integrase core domain; Region: rve; pfam00665 568706002495 Integrase core domain; Region: rve_3; pfam13683 568706002496 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 568706002497 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 568706002498 Walker A/P-loop; other site 568706002499 ATP binding site [chemical binding]; other site 568706002500 Q-loop/lid; other site 568706002501 ABC transporter signature motif; other site 568706002502 Walker B; other site 568706002503 D-loop; other site 568706002504 H-loop/switch region; other site 568706002505 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 568706002506 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 568706002507 Walker A/P-loop; other site 568706002508 ATP binding site [chemical binding]; other site 568706002509 Q-loop/lid; other site 568706002510 ABC transporter signature motif; other site 568706002511 Walker B; other site 568706002512 D-loop; other site 568706002513 H-loop/switch region; other site 568706002514 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 568706002515 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 568706002516 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706002517 putative PBP binding loops; other site 568706002518 dimer interface [polypeptide binding]; other site 568706002519 ABC-ATPase subunit interface; other site 568706002520 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 568706002521 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706002522 dimer interface [polypeptide binding]; other site 568706002523 conserved gate region; other site 568706002524 putative PBP binding loops; other site 568706002525 ABC-ATPase subunit interface; other site 568706002526 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 568706002527 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 568706002528 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 568706002529 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706002530 DNA-binding site [nucleotide binding]; DNA binding site 568706002531 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 568706002532 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706002533 homodimer interface [polypeptide binding]; other site 568706002534 catalytic residue [active] 568706002535 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 568706002536 tartrate dehydrogenase; Region: TTC; TIGR02089 568706002537 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 568706002538 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 568706002539 putative substrate translocation pore; other site 568706002540 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 568706002541 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 568706002542 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 568706002543 HlyD family secretion protein; Region: HlyD_3; pfam13437 568706002545 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002546 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002547 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002548 Integrase core domain; Region: rve; pfam00665 568706002549 Integrase core domain; Region: rve_3; pfam13683 568706002550 MarR family; Region: MarR_2; cl17246 568706002551 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 568706002552 EamA-like transporter family; Region: EamA; pfam00892 568706002553 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 568706002554 EamA-like transporter family; Region: EamA; pfam00892 568706002555 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 568706002556 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 568706002557 NADP binding site [chemical binding]; other site 568706002558 dimer interface [polypeptide binding]; other site 568706002559 heat shock protein HtpX; Provisional; Region: PRK05457 568706002561 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 568706002562 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 568706002563 active site residue [active] 568706002564 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 568706002565 active site residue [active] 568706002566 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 568706002567 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 568706002568 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706002569 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 568706002570 dimerization interface [polypeptide binding]; other site 568706002571 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 568706002572 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706002573 Walker A/P-loop; other site 568706002574 ATP binding site [chemical binding]; other site 568706002575 Q-loop/lid; other site 568706002576 ABC transporter signature motif; other site 568706002577 Walker B; other site 568706002578 D-loop; other site 568706002579 H-loop/switch region; other site 568706002580 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 568706002581 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706002582 putative PBP binding loops; other site 568706002583 dimer interface [polypeptide binding]; other site 568706002584 ABC-ATPase subunit interface; other site 568706002585 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706002586 dimer interface [polypeptide binding]; other site 568706002587 conserved gate region; other site 568706002588 putative PBP binding loops; other site 568706002589 ABC-ATPase subunit interface; other site 568706002590 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 568706002591 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 568706002592 motif II; other site 568706002593 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 568706002594 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 568706002596 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002597 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002598 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002599 Integrase core domain; Region: rve; pfam00665 568706002600 Integrase core domain; Region: rve_3; pfam13683 568706002601 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 568706002602 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 568706002603 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 568706002604 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 568706002605 dimerization interface [polypeptide binding]; other site 568706002606 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 568706002607 dimer interface [polypeptide binding]; other site 568706002608 putative CheW interface [polypeptide binding]; other site 568706002609 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 568706002610 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 568706002611 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002612 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002613 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002614 Integrase core domain; Region: rve; pfam00665 568706002615 Integrase core domain; Region: rve_3; pfam13683 568706002616 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 568706002617 Type III secretion needle MxiH like; Region: MxiH; pfam09392 568706002618 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 568706002619 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 568706002620 FHIPEP family; Region: FHIPEP; pfam00771 568706002621 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 568706002622 type III secretion chaperone SycN; Region: type_III_SycN; TIGR02503 568706002623 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 568706002624 type III secretion effector delivery regulator, TyeA family; Region: type_III_tyeA; TIGR02511 568706002625 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; cl09869 568706002626 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 568706002627 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 568706002628 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 568706002629 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 568706002630 binding surface 568706002631 TPR motif; other site 568706002632 Type III secretion needle MxiH like; Region: MxiH; pfam09392 568706002633 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 568706002634 type III secretion system protein; Reviewed; Region: PRK06937 568706002635 Flagellar assembly protein FliH; Region: FliH; pfam02108 568706002636 type III secretion system ATPase; Provisional; Region: PRK06936 568706002637 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 568706002638 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 568706002639 Walker A motif/ATP binding site; other site 568706002640 Walker B motif; other site 568706002641 Type III secretion protein YscO; Region: YscO; pfam07321 568706002642 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 568706002643 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 568706002644 type III secretion system protein YscR; Provisional; Region: PRK12797 568706002645 type III secretion protein, HrpO family; Region: fliQ_rel_III; TIGR01403 568706002646 type III secretion protein SpaR/YscT/HrcT; Region: fliR_like_III; TIGR01401 568706002647 type III secretion protein, YscU/HrpY family; Region: FlhB_rel_III; TIGR01404 568706002648 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 568706002649 Tir chaperone protein (CesT) family; Region: CesT; cl08444 568706002650 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 568706002651 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 568706002652 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 568706002653 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 568706002654 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 568706002655 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 568706002657 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 568706002658 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 568706002659 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 568706002660 dimerization interface [polypeptide binding]; other site 568706002661 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 568706002662 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 568706002663 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 568706002664 putative substrate translocation pore; other site 568706002665 Major Facilitator Superfamily; Region: MFS_1; pfam07690 568706002666 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002667 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002668 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002669 Integrase core domain; Region: rve; pfam00665 568706002670 Integrase core domain; Region: rve_3; pfam13683 568706002671 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002672 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002673 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002674 Integrase core domain; Region: rve; pfam00665 568706002675 Integrase core domain; Region: rve_3; pfam13683 568706002676 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 568706002677 alanine racemase; Reviewed; Region: alr; PRK00053 568706002678 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 568706002679 catalytic residue [active] 568706002680 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 568706002681 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 568706002682 ATP binding site [chemical binding]; other site 568706002683 Mg2+ binding site [ion binding]; other site 568706002684 G-X-G motif; other site 568706002685 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 568706002686 anti sigma factor interaction site; other site 568706002687 regulatory phosphorylation site [posttranslational modification]; other site 568706002688 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 568706002689 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 568706002690 putative active site [active] 568706002691 catalytic site [active] 568706002692 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 568706002693 putative active site [active] 568706002694 catalytic site [active] 568706002695 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 568706002696 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 568706002697 Autotransporter beta-domain; Region: Autotransporter; pfam03797 568706002698 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002699 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002700 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002701 Integrase core domain; Region: rve; pfam00665 568706002702 Integrase core domain; Region: rve_3; pfam13683 568706002703 Transcriptional regulators [Transcription]; Region: GntR; COG1802 568706002704 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706002705 DNA-binding site [nucleotide binding]; DNA binding site 568706002706 FCD domain; Region: FCD; pfam07729 568706002707 thiamine pyrophosphate protein; Validated; Region: PRK08199 568706002708 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 568706002709 PYR/PP interface [polypeptide binding]; other site 568706002710 dimer interface [polypeptide binding]; other site 568706002711 TPP binding site [chemical binding]; other site 568706002712 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 568706002713 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 568706002714 TPP-binding site [chemical binding]; other site 568706002715 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706002716 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 568706002717 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 568706002718 active site 568706002719 iron coordination sites [ion binding]; other site 568706002720 substrate binding pocket [chemical binding]; other site 568706002721 malic enzyme; Reviewed; Region: PRK12861 568706002722 Malic enzyme, N-terminal domain; Region: malic; pfam00390 568706002723 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 568706002724 putative NAD(P) binding site [chemical binding]; other site 568706002725 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 568706002726 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 568706002727 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706002728 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 568706002729 dimerization interface [polypeptide binding]; other site 568706002730 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 568706002731 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706002732 dimer interface [polypeptide binding]; other site 568706002733 conserved gate region; other site 568706002734 putative PBP binding loops; other site 568706002735 ABC-ATPase subunit interface; other site 568706002736 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 568706002737 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706002738 dimer interface [polypeptide binding]; other site 568706002739 conserved gate region; other site 568706002740 putative PBP binding loops; other site 568706002741 ABC-ATPase subunit interface; other site 568706002742 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 568706002743 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 568706002744 Walker A/P-loop; other site 568706002745 ATP binding site [chemical binding]; other site 568706002746 Q-loop/lid; other site 568706002747 ABC transporter signature motif; other site 568706002748 Walker B; other site 568706002749 D-loop; other site 568706002750 H-loop/switch region; other site 568706002751 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 568706002752 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 568706002753 Walker A/P-loop; other site 568706002754 ATP binding site [chemical binding]; other site 568706002755 Q-loop/lid; other site 568706002756 ABC transporter signature motif; other site 568706002757 Walker B; other site 568706002758 D-loop; other site 568706002759 H-loop/switch region; other site 568706002760 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 568706002763 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706002764 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706002765 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 568706002766 dimerization interface [polypeptide binding]; other site 568706002768 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 568706002769 putative hydrophobic ligand binding site [chemical binding]; other site 568706002770 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 568706002771 dimerization interface [polypeptide binding]; other site 568706002772 putative DNA binding site [nucleotide binding]; other site 568706002773 putative Zn2+ binding site [ion binding]; other site 568706002774 AsmA family; Region: AsmA; pfam05170 568706002775 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 568706002776 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 568706002777 Benzoate membrane transport protein; Region: BenE; pfam03594 568706002778 benzoate transporter; Region: benE; TIGR00843 568706002779 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 568706002780 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 568706002781 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 568706002782 active site 568706002783 (T/H)XGH motif; other site 568706002784 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 568706002785 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 568706002786 S-adenosylmethionine binding site [chemical binding]; other site 568706002787 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 568706002788 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 568706002789 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 568706002791 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 568706002792 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706002793 dimer interface [polypeptide binding]; other site 568706002794 conserved gate region; other site 568706002795 ABC-ATPase subunit interface; other site 568706002796 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 568706002797 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 568706002798 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 568706002799 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 568706002800 Walker A/P-loop; other site 568706002801 ATP binding site [chemical binding]; other site 568706002802 Q-loop/lid; other site 568706002803 ABC transporter signature motif; other site 568706002804 Walker B; other site 568706002805 D-loop; other site 568706002806 H-loop/switch region; other site 568706002807 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 568706002808 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 568706002809 substrate binding pocket [chemical binding]; other site 568706002810 membrane-bound complex binding site; other site 568706002811 hinge residues; other site 568706002812 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 568706002813 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706002814 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706002815 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 568706002816 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 568706002817 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 568706002818 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 568706002819 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 568706002820 dimerization interface [polypeptide binding]; other site 568706002821 active site 568706002822 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 568706002823 homopentamer interface [polypeptide binding]; other site 568706002824 active site 568706002825 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 568706002826 thiamine monophosphate kinase; Provisional; Region: PRK05731 568706002827 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 568706002828 ATP binding site [chemical binding]; other site 568706002829 dimerization interface [polypeptide binding]; other site 568706002830 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 568706002831 tetramer interfaces [polypeptide binding]; other site 568706002832 binuclear metal-binding site [ion binding]; other site 568706002833 Competence-damaged protein; Region: CinA; pfam02464 568706002834 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 568706002835 active site 568706002836 dimer interface [polypeptide binding]; other site 568706002837 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 568706002838 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568706002839 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 568706002840 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 568706002841 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 568706002842 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 568706002843 Autotransporter beta-domain; Region: Autotransporter; pfam03797 568706002844 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 568706002845 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 568706002846 ring oligomerisation interface [polypeptide binding]; other site 568706002847 ATP/Mg binding site [chemical binding]; other site 568706002848 stacking interactions; other site 568706002849 hinge regions; other site 568706002850 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 568706002851 oligomerisation interface [polypeptide binding]; other site 568706002852 mobile loop; other site 568706002853 roof hairpin; other site 568706002854 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 568706002855 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 568706002856 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 568706002857 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706002858 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706002859 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706002860 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 568706002861 dimerization interface [polypeptide binding]; other site 568706002862 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 568706002863 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 568706002864 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002865 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002866 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002867 Integrase core domain; Region: rve; pfam00665 568706002868 Integrase core domain; Region: rve_3; pfam13683 568706002869 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 568706002870 Mechanosensitive ion channel; Region: MS_channel; pfam00924 568706002871 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706002872 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 568706002873 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706002874 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706002875 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 568706002876 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 568706002877 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 568706002878 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 568706002879 active site 568706002880 dimerization interface [polypeptide binding]; other site 568706002881 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 568706002882 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 568706002883 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 568706002884 Transporter associated domain; Region: CorC_HlyC; smart01091 568706002885 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 568706002886 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 568706002887 putative active site [active] 568706002888 putative metal binding site [ion binding]; other site 568706002889 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 568706002890 substrate binding site [chemical binding]; other site 568706002891 TPR repeat; Region: TPR_11; pfam13414 568706002892 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 568706002893 binding surface 568706002894 TPR motif; other site 568706002895 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 568706002896 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 568706002897 active site 568706002898 HIGH motif; other site 568706002899 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 568706002900 KMSKS motif; other site 568706002901 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 568706002902 tRNA binding surface [nucleotide binding]; other site 568706002903 anticodon binding site; other site 568706002904 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 568706002905 endonuclease III; Region: ENDO3c; smart00478 568706002906 minor groove reading motif; other site 568706002907 helix-hairpin-helix signature motif; other site 568706002908 substrate binding pocket [chemical binding]; other site 568706002909 active site 568706002910 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 568706002911 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 568706002912 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706002913 Winged helix-turn helix; Region: HTH_29; pfam13551 568706002914 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706002915 Integrase core domain; Region: rve; pfam00665 568706002916 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 568706002917 TilS substrate binding domain; Region: TilS; pfam09179 568706002918 aspartate kinase; Reviewed; Region: PRK06635 568706002919 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 568706002920 putative nucleotide binding site [chemical binding]; other site 568706002921 putative catalytic residues [active] 568706002922 putative Mg ion binding site [ion binding]; other site 568706002923 putative aspartate binding site [chemical binding]; other site 568706002924 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 568706002925 putative allosteric regulatory site; other site 568706002926 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 568706002927 putative allosteric regulatory residue; other site 568706002928 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706002929 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706002930 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706002931 Cupin domain; Region: Cupin_2; pfam07883 568706002932 NIPSNAP; Region: NIPSNAP; pfam07978 568706002933 3-hydroxyacyl-CoA dehydrogenase; Validated; Region: PRK06129 568706002934 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 568706002935 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 568706002936 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 568706002937 DctM-like transporters; Region: DctM; pfam06808 568706002938 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 568706002939 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 568706002940 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 568706002941 pyrimidine utilization protein D; Region: RutD; TIGR03611 568706002942 putative L-aspartate dehydrogenase; Provisional; Region: PRK13301 568706002943 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 568706002944 Domain of unknown function DUF108; Region: DUF108; pfam01958 568706002945 short chain dehydrogenase; Provisional; Region: PRK06138 568706002946 classical (c) SDRs; Region: SDR_c; cd05233 568706002947 NAD(P) binding site [chemical binding]; other site 568706002948 active site 568706002949 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568706002950 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568706002951 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706002952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706002953 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 568706002954 dimerization interface [polypeptide binding]; other site 568706002955 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 568706002956 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 568706002958 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706002959 dimer interface [polypeptide binding]; other site 568706002960 conserved gate region; other site 568706002961 putative PBP binding loops; other site 568706002962 ABC-ATPase subunit interface; other site 568706002963 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 568706002964 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706002965 dimer interface [polypeptide binding]; other site 568706002966 conserved gate region; other site 568706002967 putative PBP binding loops; other site 568706002968 ABC-ATPase subunit interface; other site 568706002969 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 568706002970 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706002971 Walker A/P-loop; other site 568706002972 ATP binding site [chemical binding]; other site 568706002973 Q-loop/lid; other site 568706002974 ABC transporter signature motif; other site 568706002975 Walker B; other site 568706002976 D-loop; other site 568706002977 H-loop/switch region; other site 568706002978 TOBE domain; Region: TOBE_2; pfam08402 568706002981 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 568706002982 CoA binding domain; Region: CoA_binding_2; pfam13380 568706002983 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 568706002984 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 568706002985 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706002986 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 568706002987 homotrimer interaction site [polypeptide binding]; other site 568706002988 putative active site [active] 568706002989 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 568706002990 active site 2 [active] 568706002991 active site 1 [active] 568706002992 (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 568706002993 active site 568706002994 catalytic site [active] 568706002995 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 568706002996 active site 2 [active] 568706002997 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 568706002998 dimerization interface [polypeptide binding]; other site 568706002999 putative DNA binding site [nucleotide binding]; other site 568706003000 putative Zn2+ binding site [ion binding]; other site 568706003001 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 568706003002 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 568706003003 FMN binding site [chemical binding]; other site 568706003004 active site 568706003005 substrate binding site [chemical binding]; other site 568706003006 catalytic residue [active] 568706003007 N-glycosyltransferase; Provisional; Region: PRK11204 568706003008 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 568706003009 DXD motif; other site 568706003010 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 568706003011 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 568706003012 putative active site [active] 568706003013 putative metal binding site [ion binding]; other site 568706003014 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 568706003015 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 568706003016 TPR motif; other site 568706003017 TPR repeat; Region: TPR_11; pfam13414 568706003018 binding surface 568706003019 Tetratricopeptide repeat; Region: TPR_16; pfam13432 568706003020 MarR family; Region: MarR_2; cl17246 568706003021 Transcriptional regulators [Transcription]; Region: MarR; COG1846 568706003022 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706003023 Winged helix-turn helix; Region: HTH_29; pfam13551 568706003024 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706003025 Integrase core domain; Region: rve; pfam00665 568706003027 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706003028 Winged helix-turn helix; Region: HTH_29; pfam13551 568706003029 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706003030 Integrase core domain; Region: rve; pfam00665 568706003031 Integrase core domain; Region: rve_3; pfam13683 568706003033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 568706003035 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 568706003036 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 568706003037 N-terminal plug; other site 568706003038 ligand-binding site [chemical binding]; other site 568706003041 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706003042 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706003043 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706003044 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 568706003045 Isochorismatase family; Region: Isochorismatase; pfam00857 568706003046 catalytic triad [active] 568706003047 conserved cis-peptide bond; other site 568706003048 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 568706003050 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 568706003051 hypothetical protein; Provisional; Region: PRK06847 568706003052 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 568706003053 xanthine dehydrogenase E subunit; Region: pucE; TIGR03198 568706003054 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 568706003055 catalytic loop [active] 568706003056 iron binding site [ion binding]; other site 568706003057 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 568706003059 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 568706003060 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 568706003061 Walker A/P-loop; other site 568706003062 ATP binding site [chemical binding]; other site 568706003063 Q-loop/lid; other site 568706003064 ABC transporter signature motif; other site 568706003065 Walker B; other site 568706003066 D-loop; other site 568706003067 H-loop/switch region; other site 568706003068 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 568706003069 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 568706003070 Walker A/P-loop; other site 568706003071 ATP binding site [chemical binding]; other site 568706003072 Q-loop/lid; other site 568706003073 ABC transporter signature motif; other site 568706003074 Walker B; other site 568706003075 D-loop; other site 568706003076 H-loop/switch region; other site 568706003077 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 568706003078 TM-ABC transporter signature motif; other site 568706003079 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 568706003080 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 568706003081 TM-ABC transporter signature motif; other site 568706003082 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 568706003083 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 568706003084 putative ligand binding site [chemical binding]; other site 568706003085 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706003086 Winged helix-turn helix; Region: HTH_29; pfam13551 568706003087 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706003088 Integrase core domain; Region: rve; pfam00665 568706003089 Integrase core domain; Region: rve_3; pfam13683 568706003090 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 568706003091 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 568706003092 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 568706003093 dimer interface [polypeptide binding]; other site 568706003094 active site 568706003095 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 568706003096 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 568706003097 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 568706003098 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 568706003099 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 568706003100 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 568706003101 substrate binding site [chemical binding]; other site 568706003102 oxyanion hole (OAH) forming residues; other site 568706003104 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 568706003105 substrate binding site [chemical binding]; other site 568706003106 oxyanion hole (OAH) forming residues; other site 568706003107 trimer interface [polypeptide binding]; other site 568706003108 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 568706003109 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 568706003110 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 568706003111 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 568706003112 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 568706003113 dimer interface [polypeptide binding]; other site 568706003114 active site 568706003115 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 568706003116 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 568706003117 active site 568706003118 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 568706003119 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568706003120 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568706003121 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 568706003122 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 568706003123 DNA binding residues [nucleotide binding] 568706003124 dimerization interface [polypeptide binding]; other site 568706003125 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 568706003126 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 568706003127 DNA binding residues [nucleotide binding] 568706003128 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 568706003129 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 568706003130 active site 568706003131 substrate binding site [chemical binding]; other site 568706003132 metal binding site [ion binding]; metal-binding site 568706003133 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 568706003134 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 568706003135 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 568706003136 dimer interface [polypeptide binding]; other site 568706003137 active site 568706003138 serine O-acetyltransferase; Region: cysE; TIGR01172 568706003139 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 568706003140 trimer interface [polypeptide binding]; other site 568706003141 active site 568706003142 substrate binding site [chemical binding]; other site 568706003143 CoA binding site [chemical binding]; other site 568706003144 NAD-dependent deacetylase; Provisional; Region: PRK05333 568706003145 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 568706003146 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706003147 Winged helix-turn helix; Region: HTH_29; pfam13551 568706003148 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706003149 Integrase core domain; Region: rve; pfam00665 568706003150 Integrase core domain; Region: rve_3; pfam13683 568706003151 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 568706003152 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 568706003153 active site 568706003154 putative lithium-binding site [ion binding]; other site 568706003155 substrate binding site [chemical binding]; other site 568706003156 succinic semialdehyde dehydrogenase; Region: PLN02278 568706003157 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 568706003158 tetramerization interface [polypeptide binding]; other site 568706003159 NAD(P) binding site [chemical binding]; other site 568706003160 catalytic residues [active] 568706003161 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 568706003162 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 568706003163 inhibitor-cofactor binding pocket; inhibition site 568706003164 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706003165 catalytic residue [active] 568706003167 Protein of unknown function DUF72; Region: DUF72; pfam01904 568706003168 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 568706003169 Part of AAA domain; Region: AAA_19; pfam13245 568706003170 Family description; Region: UvrD_C_2; pfam13538 568706003172 Staphylococcal nuclease homologues; Region: SNc; smart00318 568706003173 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 568706003174 Catalytic site; other site 568706003175 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 568706003176 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 568706003177 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 568706003178 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706003179 dimer interface [polypeptide binding]; other site 568706003180 conserved gate region; other site 568706003181 putative PBP binding loops; other site 568706003182 ABC-ATPase subunit interface; other site 568706003183 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 568706003184 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706003185 dimer interface [polypeptide binding]; other site 568706003186 conserved gate region; other site 568706003187 putative PBP binding loops; other site 568706003188 ABC-ATPase subunit interface; other site 568706003189 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 568706003190 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 568706003191 Walker A/P-loop; other site 568706003192 ATP binding site [chemical binding]; other site 568706003193 Q-loop/lid; other site 568706003194 ABC transporter signature motif; other site 568706003195 Walker B; other site 568706003196 D-loop; other site 568706003197 H-loop/switch region; other site 568706003198 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 568706003199 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 568706003200 Walker A/P-loop; other site 568706003201 ATP binding site [chemical binding]; other site 568706003202 Q-loop/lid; other site 568706003203 ABC transporter signature motif; other site 568706003204 Walker B; other site 568706003205 D-loop; other site 568706003206 H-loop/switch region; other site 568706003207 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 568706003208 MarR family; Region: MarR_2; pfam12802 568706003210 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 568706003211 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 568706003212 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 568706003213 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 568706003214 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 568706003215 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 568706003216 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 568706003217 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 568706003218 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 568706003219 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 568706003220 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 568706003221 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 568706003222 AAA domain; Region: AAA_31; pfam13614 568706003223 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 568706003225 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 568706003226 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 568706003227 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 568706003228 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 568706003229 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 568706003230 TPR motif; other site 568706003231 binding surface 568706003233 Predicted membrane protein [Function unknown]; Region: COG4655 568706003234 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 568706003235 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 568706003236 Walker A motif; other site 568706003237 ATP binding site [chemical binding]; other site 568706003238 Walker B motif; other site 568706003239 arginine finger; other site 568706003240 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 568706003241 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 568706003242 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 568706003243 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 568706003244 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 568706003245 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 568706003246 DNA binding residues [nucleotide binding] 568706003247 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 568706003248 dinuclear metal binding motif [ion binding]; other site 568706003249 Cytochrome c; Region: Cytochrom_C; cl11414 568706003250 elongation factor P; Validated; Region: PRK00529 568706003251 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 568706003252 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 568706003253 RNA binding site [nucleotide binding]; other site 568706003254 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 568706003255 RNA binding site [nucleotide binding]; other site 568706003256 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 568706003257 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 568706003258 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 568706003259 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 568706003260 putative active site [active] 568706003261 metal binding site [ion binding]; metal-binding site 568706003262 aconitate hydratase; Provisional; Region: acnA; PRK12881 568706003263 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 568706003264 substrate binding site [chemical binding]; other site 568706003265 ligand binding site [chemical binding]; other site 568706003266 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 568706003267 substrate binding site [chemical binding]; other site 568706003268 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 568706003269 N-acetyl-D-glucosamine binding site [chemical binding]; other site 568706003270 catalytic residue [active] 568706003271 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 568706003272 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 568706003273 N-terminal plug; other site 568706003274 ligand-binding site [chemical binding]; other site 568706003275 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 568706003276 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 568706003277 motif II; other site 568706003278 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706003279 Winged helix-turn helix; Region: HTH_29; pfam13551 568706003280 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706003281 Integrase core domain; Region: rve; pfam00665 568706003282 Integrase core domain; Region: rve_3; pfam13683 568706003283 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 568706003284 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 568706003285 ligand binding site [chemical binding]; other site 568706003286 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 568706003287 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 568706003288 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 568706003289 substrate binding site [chemical binding]; other site 568706003290 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 568706003291 substrate binding site [chemical binding]; other site 568706003292 ligand binding site [chemical binding]; other site 568706003293 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 568706003294 active site 568706003295 catalytic site [active] 568706003296 substrate binding site [chemical binding]; other site 568706003297 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 568706003298 homodimer interface [polypeptide binding]; other site 568706003299 chemical substrate binding site [chemical binding]; other site 568706003300 oligomer interface [polypeptide binding]; other site 568706003301 metal binding site [ion binding]; metal-binding site 568706003302 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 568706003303 YciI-like protein; Reviewed; Region: PRK12866 568706003304 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 568706003305 EamA-like transporter family; Region: EamA; pfam00892 568706003306 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706003307 Winged helix-turn helix; Region: HTH_29; pfam13551 568706003308 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706003309 Integrase core domain; Region: rve; pfam00665 568706003310 Integrase core domain; Region: rve_3; pfam13683 568706003313 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706003314 Winged helix-turn helix; Region: HTH_29; pfam13551 568706003315 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706003316 Integrase core domain; Region: rve; pfam00665 568706003317 Integrase core domain; Region: rve_3; pfam13683 568706003318 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706003319 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706003320 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 568706003321 putative dimerization interface [polypeptide binding]; other site 568706003322 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 568706003323 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 568706003324 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 568706003327 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706003328 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706003329 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706003330 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 568706003331 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 568706003332 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 568706003333 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 568706003334 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 568706003335 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 568706003336 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 568706003337 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 568706003338 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 568706003339 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 568706003340 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 568706003341 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 568706003342 Walker A motif/ATP binding site; other site 568706003343 Walker B motif; other site 568706003344 flagellar assembly protein H; Validated; Region: fliH; PRK05687 568706003345 Flagellar assembly protein FliH; Region: FliH; pfam02108 568706003346 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 568706003347 FliG C-terminal domain; Region: FliG_C; pfam01706 568706003348 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 568706003349 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 568706003350 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 568706003351 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 568706003352 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 568706003354 Flagellar protein FliT; Region: FliT; pfam05400 568706003355 Flagellar protein FliS; Region: FliS; cl00654 568706003356 flagellar capping protein; Reviewed; Region: fliD; PRK08032 568706003357 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 568706003358 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 568706003359 FlaG protein; Region: FlaG; pfam03646 568706003360 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 568706003361 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568706003362 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 568706003363 Sporulation related domain; Region: SPOR; pfam05036 568706003364 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 568706003365 Colicin V production protein; Region: Colicin_V; pfam02674 568706003366 amidophosphoribosyltransferase; Provisional; Region: PRK09246 568706003367 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 568706003368 active site 568706003369 tetramer interface [polypeptide binding]; other site 568706003370 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568706003371 active site 568706003372 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 568706003373 MarC family integral membrane protein; Region: MarC; cl00919 568706003374 PII uridylyl-transferase; Provisional; Region: PRK03059 568706003375 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 568706003376 metal binding triad; other site 568706003377 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 568706003378 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568706003379 Zn2+ binding site [ion binding]; other site 568706003380 Mg2+ binding site [ion binding]; other site 568706003381 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 568706003382 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 568706003383 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 568706003384 active site 568706003385 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 568706003386 rRNA interaction site [nucleotide binding]; other site 568706003387 S8 interaction site; other site 568706003388 putative laminin-1 binding site; other site 568706003389 elongation factor Ts; Provisional; Region: tsf; PRK09377 568706003390 UBA/TS-N domain; Region: UBA; pfam00627 568706003391 Elongation factor TS; Region: EF_TS; pfam00889 568706003392 Elongation factor TS; Region: EF_TS; pfam00889 568706003393 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 568706003394 putative nucleotide binding site [chemical binding]; other site 568706003395 uridine monophosphate binding site [chemical binding]; other site 568706003396 homohexameric interface [polypeptide binding]; other site 568706003397 ribosome recycling factor; Reviewed; Region: frr; PRK00083 568706003398 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 568706003399 hinge region; other site 568706003400 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14836 568706003401 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 568706003402 catalytic residue [active] 568706003403 putative FPP diphosphate binding site; other site 568706003404 putative FPP binding hydrophobic cleft; other site 568706003405 dimer interface [polypeptide binding]; other site 568706003406 putative IPP diphosphate binding site; other site 568706003407 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 568706003408 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 568706003409 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 568706003410 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 568706003411 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 568706003412 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 568706003413 zinc metallopeptidase RseP; Provisional; Region: PRK10779 568706003414 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 568706003415 active site 568706003416 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 568706003417 putative substrate binding region [chemical binding]; other site 568706003418 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 568706003419 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 568706003420 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 568706003421 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 568706003422 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 568706003423 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 568706003424 Surface antigen; Region: Bac_surface_Ag; pfam01103 568706003425 periplasmic chaperone; Provisional; Region: PRK10780 568706003426 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 568706003427 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 568706003428 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 568706003429 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 568706003430 trimer interface [polypeptide binding]; other site 568706003431 active site 568706003432 UDP-GlcNAc binding site [chemical binding]; other site 568706003433 lipid binding site [chemical binding]; lipid-binding site 568706003434 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 568706003435 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 568706003436 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 568706003437 active site 568706003438 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 568706003439 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 568706003440 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 568706003441 RNA/DNA hybrid binding site [nucleotide binding]; other site 568706003442 active site 568706003443 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 568706003444 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 568706003445 PEP synthetase regulatory protein; Provisional; Region: PRK05339 568706003446 phosphoenolpyruvate synthase; Validated; Region: PRK06464 568706003447 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 568706003448 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 568706003449 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 568706003450 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 568706003451 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 568706003452 catalytic triad [active] 568706003453 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706003454 Winged helix-turn helix; Region: HTH_29; pfam13551 568706003455 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706003456 Integrase core domain; Region: rve; pfam00665 568706003457 Integrase core domain; Region: rve_3; pfam13683 568706003458 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 568706003459 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 568706003460 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 568706003461 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 568706003462 metal binding site [ion binding]; metal-binding site 568706003463 active site 568706003464 I-site; other site 568706003465 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 568706003466 SmpB-tmRNA interface; other site 568706003467 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 568706003468 putative coenzyme Q binding site [chemical binding]; other site 568706003469 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 568706003470 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 568706003471 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 568706003472 active site 568706003473 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 568706003474 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 568706003475 substrate binding site [chemical binding]; other site 568706003476 oxyanion hole (OAH) forming residues; other site 568706003477 trimer interface [polypeptide binding]; other site 568706003478 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 568706003479 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 568706003480 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 568706003481 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 568706003482 CoenzymeA binding site [chemical binding]; other site 568706003483 subunit interaction site [polypeptide binding]; other site 568706003484 PHB binding site; other site 568706003485 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 568706003486 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706003487 Winged helix-turn helix; Region: HTH_29; pfam13551 568706003488 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706003489 Integrase core domain; Region: rve; pfam00665 568706003490 Integrase core domain; Region: rve_3; pfam13683 568706003491 transaldolase-like protein; Provisional; Region: PTZ00411 568706003492 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 568706003493 active site 568706003494 dimer interface [polypeptide binding]; other site 568706003495 catalytic residue [active] 568706003496 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 568706003497 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 568706003498 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 568706003499 catalytic site [active] 568706003500 subunit interface [polypeptide binding]; other site 568706003501 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 568706003502 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 568706003503 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 568706003504 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 568706003505 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 568706003506 ATP-grasp domain; Region: ATP-grasp_4; cl17255 568706003507 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 568706003508 IMP binding site; other site 568706003509 dimer interface [polypeptide binding]; other site 568706003510 interdomain contacts; other site 568706003511 partial ornithine binding site; other site 568706003513 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 568706003514 catalytic core [active] 568706003515 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706003516 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706003517 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 568706003518 dimerization interface [polypeptide binding]; other site 568706003519 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 568706003520 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706003521 Walker A/P-loop; other site 568706003522 ATP binding site [chemical binding]; other site 568706003523 Q-loop/lid; other site 568706003524 ABC transporter signature motif; other site 568706003525 Walker B; other site 568706003526 D-loop; other site 568706003527 H-loop/switch region; other site 568706003528 TOBE domain; Region: TOBE_2; pfam08402 568706003529 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 568706003530 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706003531 dimer interface [polypeptide binding]; other site 568706003532 conserved gate region; other site 568706003533 putative PBP binding loops; other site 568706003534 ABC-ATPase subunit interface; other site 568706003535 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706003536 dimer interface [polypeptide binding]; other site 568706003537 conserved gate region; other site 568706003538 putative PBP binding loops; other site 568706003539 ABC-ATPase subunit interface; other site 568706003540 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706003541 Winged helix-turn helix; Region: HTH_29; pfam13551 568706003542 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706003543 Integrase core domain; Region: rve; pfam00665 568706003544 Integrase core domain; Region: rve_3; pfam13683 568706003546 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 568706003547 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 568706003548 Tetramer interface [polypeptide binding]; other site 568706003549 active site 568706003550 FMN-binding site [chemical binding]; other site 568706003551 Peptidase family M48; Region: Peptidase_M48; pfam01435 568706003552 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 568706003553 Walker A motif; other site 568706003554 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 568706003555 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 568706003556 dimer interface [polypeptide binding]; other site 568706003557 putative functional site; other site 568706003558 putative MPT binding site; other site 568706003559 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 568706003560 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 568706003561 GTP binding site; other site 568706003562 Domain of unknown function DUF59; Region: DUF59; pfam01883 568706003563 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 568706003564 Walker A motif; other site 568706003565 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 568706003566 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 568706003567 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 568706003568 4Fe-4S binding domain; Region: Fer4; pfam00037 568706003569 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 568706003570 4Fe-4S binding domain; Region: Fer4; pfam00037 568706003571 4Fe-4S binding domain; Region: Fer4; pfam00037 568706003572 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 568706003573 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 568706003574 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 568706003575 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 568706003576 [4Fe-4S] binding site [ion binding]; other site 568706003577 molybdopterin cofactor binding site; other site 568706003578 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 568706003579 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 568706003580 molybdopterin cofactor binding site; other site 568706003582 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 568706003583 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 568706003584 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 568706003585 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 568706003586 PBP superfamily domain; Region: PBP_like; pfam12727 568706003588 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 568706003589 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 568706003590 Walker A/P-loop; other site 568706003591 ATP binding site [chemical binding]; other site 568706003592 Q-loop/lid; other site 568706003593 ABC transporter signature motif; other site 568706003594 Walker B; other site 568706003595 D-loop; other site 568706003596 H-loop/switch region; other site 568706003597 PBP superfamily domain; Region: PBP_like_2; pfam12849 568706003598 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 568706003599 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 568706003600 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 568706003601 substrate binding site [chemical binding]; other site 568706003602 ligand binding site [chemical binding]; other site 568706003603 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 568706003604 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 568706003605 substrate binding site [chemical binding]; other site 568706003606 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 568706003607 tartrate dehydrogenase; Region: TTC; TIGR02089 568706003608 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 568706003609 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 568706003610 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 568706003611 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 568706003612 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 568706003613 dimerization interface 3.5A [polypeptide binding]; other site 568706003614 active site 568706003615 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 568706003616 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 568706003617 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 568706003618 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 568706003619 DctM-like transporters; Region: DctM; pfam06808 568706003620 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 568706003621 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 568706003622 active site 568706003623 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706003624 Winged helix-turn helix; Region: HTH_29; pfam13551 568706003625 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706003626 Integrase core domain; Region: rve; pfam00665 568706003627 Integrase core domain; Region: rve_3; pfam13683 568706003628 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 568706003629 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 568706003630 Walker A/P-loop; other site 568706003631 ATP binding site [chemical binding]; other site 568706003632 Q-loop/lid; other site 568706003633 ABC transporter signature motif; other site 568706003634 Walker B; other site 568706003635 D-loop; other site 568706003636 H-loop/switch region; other site 568706003637 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706003638 dimer interface [polypeptide binding]; other site 568706003639 conserved gate region; other site 568706003640 putative PBP binding loops; other site 568706003641 ABC-ATPase subunit interface; other site 568706003642 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706003643 dimer interface [polypeptide binding]; other site 568706003644 conserved gate region; other site 568706003645 putative PBP binding loops; other site 568706003646 ABC-ATPase subunit interface; other site 568706003647 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 568706003648 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 568706003649 substrate binding pocket [chemical binding]; other site 568706003650 membrane-bound complex binding site; other site 568706003651 hinge residues; other site 568706003652 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 568706003653 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 568706003654 putative ligand binding site [chemical binding]; other site 568706003655 ornithine cyclodeaminase; Validated; Region: PRK06141 568706003656 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 568706003658 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 568706003659 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 568706003660 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 568706003661 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 568706003662 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 568706003663 dimerization domain swap beta strand [polypeptide binding]; other site 568706003664 regulatory protein interface [polypeptide binding]; other site 568706003665 active site 568706003666 regulatory phosphorylation site [posttranslational modification]; other site 568706003667 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 568706003668 active pocket/dimerization site; other site 568706003669 active site 568706003670 phosphorylation site [posttranslational modification] 568706003671 glutathione synthetase; Provisional; Region: PRK05246 568706003672 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 568706003673 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 568706003674 translation initiation factor IF-3; Region: infC; TIGR00168 568706003675 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 568706003676 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 568706003677 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 568706003678 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 568706003679 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 568706003680 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 568706003681 active site 568706003682 dimer interface [polypeptide binding]; other site 568706003683 motif 1; other site 568706003684 motif 2; other site 568706003685 motif 3; other site 568706003686 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 568706003687 anticodon binding site; other site 568706003688 Response regulator receiver domain; Region: Response_reg; pfam00072 568706003689 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 568706003690 active site 568706003691 phosphorylation site [posttranslational modification] 568706003692 intermolecular recognition site; other site 568706003693 dimerization interface [polypeptide binding]; other site 568706003694 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 568706003695 DNA binding residues [nucleotide binding] 568706003697 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706003698 Winged helix-turn helix; Region: HTH_29; pfam13551 568706003699 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706003700 Integrase core domain; Region: rve; pfam00665 568706003701 Integrase core domain; Region: rve_3; pfam13683 568706003704 hypothetical protein; Provisional; Region: PRK02399 568706003705 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 568706003706 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 568706003707 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 568706003708 putative hydrophobic ligand binding site [chemical binding]; other site 568706003709 protein interface [polypeptide binding]; other site 568706003710 gate; other site 568706003711 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706003712 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706003713 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 568706003714 putative dimerization interface [polypeptide binding]; other site 568706003715 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 568706003716 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 568706003717 active site 568706003718 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 568706003719 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706003720 Flavodoxin; Region: Flavodoxin_1; pfam00258 568706003721 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 568706003722 FAD binding pocket [chemical binding]; other site 568706003723 FAD binding motif [chemical binding]; other site 568706003724 catalytic residues [active] 568706003725 NAD binding pocket [chemical binding]; other site 568706003726 phosphate binding motif [ion binding]; other site 568706003727 beta-alpha-beta structure motif; other site 568706003728 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 568706003729 ApbE family; Region: ApbE; pfam02424 568706003730 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 568706003731 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 568706003732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 568706003733 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 568706003734 nodulation ABC transporter NodI; Provisional; Region: PRK13537 568706003735 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 568706003736 Walker A/P-loop; other site 568706003737 ATP binding site [chemical binding]; other site 568706003738 Q-loop/lid; other site 568706003739 ABC transporter signature motif; other site 568706003740 Walker B; other site 568706003741 D-loop; other site 568706003742 H-loop/switch region; other site 568706003743 ABC-2 type transporter; Region: ABC2_membrane; cl17235 568706003744 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 568706003745 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 568706003746 chromosome condensation membrane protein; Provisional; Region: PRK14196 568706003747 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 568706003748 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 568706003749 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 568706003750 active site lid residues [active] 568706003751 substrate binding pocket [chemical binding]; other site 568706003752 catalytic residues [active] 568706003753 substrate-Mg2+ binding site; other site 568706003754 aspartate-rich region 1; other site 568706003755 aspartate-rich region 2; other site 568706003756 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 568706003757 active site lid residues [active] 568706003758 substrate binding pocket [chemical binding]; other site 568706003759 catalytic residues [active] 568706003760 substrate-Mg2+ binding site; other site 568706003761 aspartate-rich region 1; other site 568706003762 aspartate-rich region 2; other site 568706003763 alanine racemase; Reviewed; Region: alr; PRK00053 568706003764 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 568706003765 active site 568706003766 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 568706003767 substrate binding site [chemical binding]; other site 568706003768 catalytic residues [active] 568706003769 dimer interface [polypeptide binding]; other site 568706003770 short chain dehydrogenase; Provisional; Region: PRK07577 568706003771 classical (c) SDRs; Region: SDR_c; cd05233 568706003772 NAD(P) binding site [chemical binding]; other site 568706003773 active site 568706003774 RNA polymerase sigma factor; Provisional; Region: PRK12513 568706003775 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 568706003776 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 568706003777 DNA binding residues [nucleotide binding] 568706003779 DNA repair protein RadA; Provisional; Region: PRK11823 568706003780 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 568706003781 Walker A motif/ATP binding site; other site 568706003782 ATP binding site [chemical binding]; other site 568706003783 Walker B motif; other site 568706003784 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 568706003785 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 568706003786 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 568706003787 multidrug efflux protein; Reviewed; Region: PRK01766 568706003788 cation binding site [ion binding]; other site 568706003789 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 568706003790 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 568706003791 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 568706003792 arylformamidase; Region: trp_arylform; TIGR03035 568706003793 hypothetical protein; Reviewed; Region: PRK00024 568706003794 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 568706003795 MPN+ (JAMM) motif; other site 568706003796 Zinc-binding site [ion binding]; other site 568706003797 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 568706003798 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 568706003799 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 568706003800 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 568706003801 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 568706003802 maleylacetoacetate isomerase; Region: maiA; TIGR01262 568706003803 C-terminal domain interface [polypeptide binding]; other site 568706003804 GSH binding site (G-site) [chemical binding]; other site 568706003805 putative dimer interface [polypeptide binding]; other site 568706003806 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 568706003807 dimer interface [polypeptide binding]; other site 568706003808 N-terminal domain interface [polypeptide binding]; other site 568706003809 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 568706003810 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 568706003811 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 568706003812 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 568706003813 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 568706003814 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 568706003815 putative FMN binding site [chemical binding]; other site 568706003816 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706003817 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706003818 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 568706003819 putative effector binding pocket; other site 568706003820 dimerization interface [polypeptide binding]; other site 568706003821 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 568706003822 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 568706003823 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 568706003824 RNA binding surface [nucleotide binding]; other site 568706003825 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 568706003826 probable active site [active] 568706003827 ribosome maturation protein RimP; Reviewed; Region: PRK00092 568706003828 Sm and related proteins; Region: Sm_like; cl00259 568706003829 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 568706003830 putative oligomer interface [polypeptide binding]; other site 568706003831 putative RNA binding site [nucleotide binding]; other site 568706003832 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 568706003833 NusA N-terminal domain; Region: NusA_N; pfam08529 568706003834 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 568706003835 RNA binding site [nucleotide binding]; other site 568706003836 homodimer interface [polypeptide binding]; other site 568706003837 NusA-like KH domain; Region: KH_5; pfam13184 568706003838 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 568706003839 G-X-X-G motif; other site 568706003840 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 568706003841 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 568706003842 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 568706003843 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 568706003844 translation initiation factor IF-2; Region: IF-2; TIGR00487 568706003845 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 568706003846 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 568706003847 G1 box; other site 568706003848 putative GEF interaction site [polypeptide binding]; other site 568706003849 GTP/Mg2+ binding site [chemical binding]; other site 568706003850 Switch I region; other site 568706003851 G2 box; other site 568706003852 G3 box; other site 568706003853 Switch II region; other site 568706003854 G4 box; other site 568706003855 G5 box; other site 568706003856 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 568706003857 Translation-initiation factor 2; Region: IF-2; pfam11987 568706003858 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 568706003859 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 568706003860 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00020 568706003861 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 568706003862 RNA binding site [nucleotide binding]; other site 568706003863 active site 568706003864 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 568706003865 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 568706003866 G1 box; other site 568706003867 putative GEF interaction site [polypeptide binding]; other site 568706003868 GTP/Mg2+ binding site [chemical binding]; other site 568706003869 Switch I region; other site 568706003870 G2 box; other site 568706003871 G3 box; other site 568706003872 Switch II region; other site 568706003873 G4 box; other site 568706003874 G5 box; other site 568706003875 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 568706003876 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 568706003877 Aerolysin/Pertussis toxin (APT) domain; Region: APT; pfam03440 568706003878 Pertussis toxin, subunit 2 and 3, C-terminal domain; Region: Pertussis_S2S3; pfam02918 568706003879 subtilase cytotoxin subunit B-like protein; Provisional; Region: PRK15265; cl14664 568706003880 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 568706003881 DNA polymerase I; Provisional; Region: PRK05755 568706003882 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 568706003883 active site 568706003884 metal binding site 1 [ion binding]; metal-binding site 568706003885 putative 5' ssDNA interaction site; other site 568706003886 metal binding site 3; metal-binding site 568706003887 metal binding site 2 [ion binding]; metal-binding site 568706003888 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 568706003889 putative DNA binding site [nucleotide binding]; other site 568706003890 putative metal binding site [ion binding]; other site 568706003891 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 568706003892 active site 568706003893 catalytic site [active] 568706003894 substrate binding site [chemical binding]; other site 568706003895 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 568706003896 active site 568706003897 DNA binding site [nucleotide binding] 568706003898 catalytic site [active] 568706003899 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 568706003900 Dienelactone hydrolase family; Region: DLH; pfam01738 568706003901 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 568706003902 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 568706003903 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 568706003904 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 568706003905 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 568706003906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 568706003907 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 568706003908 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 568706003909 metal binding triad; other site 568706003910 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 568706003911 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 568706003912 metal binding triad; other site 568706003914 transcription termination factor Rho; Provisional; Region: rho; PRK09376 568706003915 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 568706003916 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 568706003917 RNA binding site [nucleotide binding]; other site 568706003918 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 568706003919 multimer interface [polypeptide binding]; other site 568706003920 Walker A motif; other site 568706003921 ATP binding site [chemical binding]; other site 568706003922 Walker B motif; other site 568706003923 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 568706003924 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 568706003925 catalytic residues [active] 568706003926 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 568706003927 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 568706003928 ATP binding site [chemical binding]; other site 568706003929 Mg2+ binding site [ion binding]; other site 568706003930 G-X-G motif; other site 568706003931 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 568706003932 anchoring element; other site 568706003933 dimer interface [polypeptide binding]; other site 568706003934 ATP binding site [chemical binding]; other site 568706003935 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 568706003936 active site 568706003937 metal binding site [ion binding]; metal-binding site 568706003938 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 568706003939 YcxB-like protein; Region: YcxB; pfam14317 568706003940 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 568706003941 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 568706003942 CAP-like domain; other site 568706003943 active site 568706003944 primary dimer interface [polypeptide binding]; other site 568706003945 Protein of unknown function (DUF418); Region: DUF418; pfam04235 568706003946 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706003947 Winged helix-turn helix; Region: HTH_29; pfam13551 568706003948 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706003949 Integrase core domain; Region: rve; pfam00665 568706003950 Integrase core domain; Region: rve_3; pfam13683 568706003951 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 568706003952 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 568706003953 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 568706003954 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 568706003955 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 568706003956 hypothetical protein; Provisional; Region: PRK07483 568706003957 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 568706003958 inhibitor-cofactor binding pocket; inhibition site 568706003959 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706003960 catalytic residue [active] 568706003961 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 568706003962 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 568706003963 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 568706003964 putative active site [active] 568706003965 Transcriptional regulators [Transcription]; Region: MarR; COG1846 568706003966 MarR family; Region: MarR; pfam01047 568706003967 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568706003968 Coenzyme A binding pocket [chemical binding]; other site 568706003969 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706003970 Winged helix-turn helix; Region: HTH_29; pfam13551 568706003971 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706003972 Integrase core domain; Region: rve; pfam00665 568706003973 Integrase core domain; Region: rve_3; pfam13683 568706003975 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 568706003976 Predicted transcriptional regulator [Transcription]; Region: COG1959 568706003977 Transcriptional regulator; Region: Rrf2; cl17282 568706003978 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 568706003979 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 568706003980 heme-binding site [chemical binding]; other site 568706003981 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 568706003982 FAD binding pocket [chemical binding]; other site 568706003983 FAD binding motif [chemical binding]; other site 568706003984 phosphate binding motif [ion binding]; other site 568706003985 beta-alpha-beta structure motif; other site 568706003986 NAD binding pocket [chemical binding]; other site 568706003987 Heme binding pocket [chemical binding]; other site 568706003988 Yqey-like protein; Region: YqeY; pfam09424 568706003989 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706003990 Winged helix-turn helix; Region: HTH_29; pfam13551 568706003991 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706003992 Integrase core domain; Region: rve; pfam00665 568706003993 Integrase core domain; Region: rve_3; pfam13683 568706003994 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 568706003995 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 568706003996 YceG-like family; Region: YceG; pfam02618 568706003997 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 568706003998 dimerization interface [polypeptide binding]; other site 568706003999 thymidylate kinase; Validated; Region: tmk; PRK00698 568706004000 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 568706004001 TMP-binding site; other site 568706004002 ATP-binding site [chemical binding]; other site 568706004003 DNA polymerase III subunit delta'; Validated; Region: PRK06964 568706004004 DNA polymerase III subunit delta'; Validated; Region: PRK08485 568706004005 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 568706004006 active site 568706004007 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 568706004008 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 568706004009 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 568706004010 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706004011 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 568706004012 putative DNA binding site [nucleotide binding]; other site 568706004013 putative Zn2+ binding site [ion binding]; other site 568706004014 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706004015 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 568706004016 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 568706004017 substrate binding pocket [chemical binding]; other site 568706004018 membrane-bound complex binding site; other site 568706004019 hinge residues; other site 568706004021 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 568706004022 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 568706004023 Walker A/P-loop; other site 568706004024 ATP binding site [chemical binding]; other site 568706004025 Q-loop/lid; other site 568706004026 ABC transporter signature motif; other site 568706004027 Walker B; other site 568706004028 D-loop; other site 568706004029 H-loop/switch region; other site 568706004031 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 568706004032 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 568706004033 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 568706004034 NAD(P) binding site [chemical binding]; other site 568706004036 allantoate amidohydrolase; Reviewed; Region: PRK12893 568706004037 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 568706004038 active site 568706004039 metal binding site [ion binding]; metal-binding site 568706004040 dimer interface [polypeptide binding]; other site 568706004041 thiamine pyrophosphate protein; Validated; Region: PRK08199 568706004042 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 568706004043 PYR/PP interface [polypeptide binding]; other site 568706004044 dimer interface [polypeptide binding]; other site 568706004045 TPP binding site [chemical binding]; other site 568706004046 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 568706004047 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 568706004048 TPP-binding site [chemical binding]; other site 568706004049 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 568706004050 DctM-like transporters; Region: DctM; pfam06808 568706004051 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 568706004052 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 568706004053 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 568706004054 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 568706004055 Transcriptional regulators [Transcription]; Region: FadR; COG2186 568706004056 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706004057 DNA-binding site [nucleotide binding]; DNA binding site 568706004058 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 568706004059 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004060 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004061 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004062 Integrase core domain; Region: rve; pfam00665 568706004063 Integrase core domain; Region: rve_3; pfam13683 568706004065 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 568706004066 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 568706004067 TM-ABC transporter signature motif; other site 568706004069 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 568706004070 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 568706004071 putative ligand binding site [chemical binding]; other site 568706004072 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 568706004073 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 568706004074 dimer interface [polypeptide binding]; other site 568706004075 putative metal binding site [ion binding]; other site 568706004076 hypothetical protein; Provisional; Region: PRK07236 568706004077 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 568706004078 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706004079 LysR family transcriptional regulator; Provisional; Region: PRK14997 568706004080 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 568706004081 putative effector binding pocket; other site 568706004082 dimerization interface [polypeptide binding]; other site 568706004085 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004086 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004087 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004088 Integrase core domain; Region: rve; pfam00665 568706004089 Integrase core domain; Region: rve_3; pfam13683 568706004090 YcfA-like protein; Region: YcfA; pfam07927 568706004091 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 568706004092 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 568706004093 putative substrate translocation pore; other site 568706004094 phosphoglycolate phosphatase; Provisional; Region: PRK13226 568706004095 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 568706004096 motif II; other site 568706004097 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 568706004098 Methyltransferase domain; Region: Methyltransf_32; pfam13679 568706004099 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 568706004100 S-adenosylmethionine binding site [chemical binding]; other site 568706004101 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 568706004102 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 568706004103 ligand binding site [chemical binding]; other site 568706004104 DNA gyrase subunit A; Validated; Region: PRK05560 568706004105 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 568706004106 CAP-like domain; other site 568706004107 active site 568706004108 primary dimer interface [polypeptide binding]; other site 568706004109 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 568706004110 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 568706004111 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 568706004112 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 568706004113 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 568706004114 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 568706004115 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 568706004116 homodimer interface [polypeptide binding]; other site 568706004117 substrate-cofactor binding pocket; other site 568706004118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706004119 catalytic residue [active] 568706004120 Chorismate mutase type II; Region: CM_2; cl00693 568706004121 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 568706004122 Prephenate dehydratase; Region: PDT; pfam00800 568706004123 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 568706004124 putative L-Phe binding site [chemical binding]; other site 568706004125 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 568706004126 prephenate dehydrogenase; Validated; Region: PRK08507 568706004127 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 568706004128 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 568706004129 hinge; other site 568706004130 active site 568706004131 cytidylate kinase; Provisional; Region: cmk; PRK00023 568706004132 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 568706004133 CMP-binding site; other site 568706004134 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 568706004135 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 568706004136 RNA binding site [nucleotide binding]; other site 568706004137 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 568706004138 RNA binding site [nucleotide binding]; other site 568706004139 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 568706004140 RNA binding site [nucleotide binding]; other site 568706004141 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 568706004142 RNA binding site [nucleotide binding]; other site 568706004143 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 568706004144 RNA binding site [nucleotide binding]; other site 568706004145 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 568706004146 RNA binding site [nucleotide binding]; other site 568706004147 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 568706004148 IHF - DNA interface [nucleotide binding]; other site 568706004149 IHF dimer interface [polypeptide binding]; other site 568706004150 tetratricopeptide repeat protein; Provisional; Region: PRK11788 568706004151 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 568706004152 binding surface 568706004153 TPR motif; other site 568706004154 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 568706004155 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 568706004156 putative ribose interaction site [chemical binding]; other site 568706004157 putative ADP binding site [chemical binding]; other site 568706004158 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 568706004159 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 568706004160 NADP binding site [chemical binding]; other site 568706004161 homopentamer interface [polypeptide binding]; other site 568706004162 substrate binding site [chemical binding]; other site 568706004163 active site 568706004164 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 568706004165 Helix-hairpin-helix motif; Region: HHH; pfam00633 568706004166 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004167 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004168 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004169 Integrase core domain; Region: rve; pfam00665 568706004170 Integrase core domain; Region: rve_3; pfam13683 568706004171 cysteine synthase B; Region: cysM; TIGR01138 568706004172 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 568706004173 dimer interface [polypeptide binding]; other site 568706004174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706004175 catalytic residue [active] 568706004176 Transglycosylase SLT domain; Region: SLT_2; pfam13406 568706004177 NIL domain; Region: NIL; cl09633 568706004178 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 568706004179 N-acetyl-D-glucosamine binding site [chemical binding]; other site 568706004180 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 568706004181 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 568706004182 putative active site [active] 568706004183 Zn binding site [ion binding]; other site 568706004184 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 568706004185 Ligand binding site [chemical binding]; other site 568706004186 Electron transfer flavoprotein domain; Region: ETF; pfam01012 568706004187 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 568706004188 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 568706004189 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 568706004190 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 568706004191 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 568706004192 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 568706004193 active site 568706004194 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 568706004195 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 568706004196 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 568706004197 dimer interface [polypeptide binding]; other site 568706004198 decamer (pentamer of dimers) interface [polypeptide binding]; other site 568706004199 catalytic triad [active] 568706004200 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 568706004201 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 568706004204 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 568706004205 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 568706004206 Walker A/P-loop; other site 568706004207 ATP binding site [chemical binding]; other site 568706004208 Q-loop/lid; other site 568706004209 ABC transporter signature motif; other site 568706004210 Walker B; other site 568706004211 D-loop; other site 568706004212 H-loop/switch region; other site 568706004213 TOBE-like domain; Region: TOBE_3; pfam12857 568706004215 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 568706004216 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 568706004217 Active Sites [active] 568706004219 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 568706004220 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 568706004221 EamA-like transporter family; Region: EamA; cl17759 568706004222 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 568706004223 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 568706004224 putative active site [active] 568706004225 putative CoA binding site [chemical binding]; other site 568706004226 nudix motif; other site 568706004227 metal binding site [ion binding]; metal-binding site 568706004228 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004229 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004230 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004231 Integrase core domain; Region: rve; pfam00665 568706004232 Integrase core domain; Region: rve_3; pfam13683 568706004233 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 568706004234 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 568706004235 active site 568706004236 catalytic tetrad [active] 568706004237 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706004238 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706004239 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706004241 Chorismate lyase; Region: Chor_lyase; cl01230 568706004242 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 568706004243 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 568706004244 RNA binding surface [nucleotide binding]; other site 568706004245 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 568706004246 active site 568706004247 transcriptional regulator; Provisional; Region: PRK10632 568706004248 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706004249 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 568706004250 putative effector binding pocket; other site 568706004251 dimerization interface [polypeptide binding]; other site 568706004254 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 568706004255 Transglycosylase associated protein; Region: Transgly_assoc; pfam04226 568706004256 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 568706004257 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 568706004258 Cu(I) binding site [ion binding]; other site 568706004259 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 568706004260 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 568706004261 active site 568706004262 Zn binding site [ion binding]; other site 568706004263 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 568706004264 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 568706004265 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 568706004266 homodimer interface [polypeptide binding]; other site 568706004267 NADP binding site [chemical binding]; other site 568706004268 substrate binding site [chemical binding]; other site 568706004269 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 568706004270 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 568706004271 active site 568706004272 phosphorylation site [posttranslational modification] 568706004273 intermolecular recognition site; other site 568706004274 dimerization interface [polypeptide binding]; other site 568706004275 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 568706004276 DNA binding residues [nucleotide binding] 568706004277 dimerization interface [polypeptide binding]; other site 568706004278 PAS domain S-box; Region: sensory_box; TIGR00229 568706004279 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 568706004280 putative active site [active] 568706004281 heme pocket [chemical binding]; other site 568706004282 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 568706004283 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 568706004284 dimer interface [polypeptide binding]; other site 568706004285 phosphorylation site [posttranslational modification] 568706004286 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 568706004287 ATP binding site [chemical binding]; other site 568706004288 Mg2+ binding site [ion binding]; other site 568706004289 G-X-G motif; other site 568706004290 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 568706004291 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 568706004292 dimer interface [polypeptide binding]; other site 568706004293 TPP-binding site [chemical binding]; other site 568706004294 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 568706004295 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 568706004296 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 568706004297 E3 interaction surface; other site 568706004298 lipoyl attachment site [posttranslational modification]; other site 568706004299 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 568706004300 E3 interaction surface; other site 568706004301 lipoyl attachment site [posttranslational modification]; other site 568706004302 e3 binding domain; Region: E3_binding; pfam02817 568706004303 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 568706004304 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 568706004305 E3 interaction surface; other site 568706004306 lipoyl attachment site [posttranslational modification]; other site 568706004307 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 568706004308 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 568706004309 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568706004310 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 568706004311 flagellin; Validated; Region: PRK06819 568706004312 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 568706004313 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 568706004314 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004315 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004316 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004317 Integrase core domain; Region: rve; pfam00665 568706004318 Integrase core domain; Region: rve_3; pfam13683 568706004319 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 568706004320 RNA methyltransferase, RsmE family; Region: TIGR00046 568706004321 transketolase; Reviewed; Region: PRK12753 568706004322 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 568706004323 TPP-binding site [chemical binding]; other site 568706004324 dimer interface [polypeptide binding]; other site 568706004325 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 568706004326 PYR/PP interface [polypeptide binding]; other site 568706004327 dimer interface [polypeptide binding]; other site 568706004328 TPP binding site [chemical binding]; other site 568706004329 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 568706004330 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 568706004331 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 568706004332 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 568706004333 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 568706004334 Phosphoglycerate kinase; Region: PGK; pfam00162 568706004335 substrate binding site [chemical binding]; other site 568706004336 hinge regions; other site 568706004337 ADP binding site [chemical binding]; other site 568706004338 catalytic site [active] 568706004339 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 568706004340 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 568706004341 NAD binding site [chemical binding]; other site 568706004342 homotetramer interface [polypeptide binding]; other site 568706004343 homodimer interface [polypeptide binding]; other site 568706004344 substrate binding site [chemical binding]; other site 568706004345 active site 568706004346 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 568706004347 propionate/acetate kinase; Provisional; Region: PRK12379 568706004348 phosphate acetyltransferase; Provisional; Region: PRK11890 568706004349 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 568706004350 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 568706004351 glutathione S-transferase; Provisional; Region: PRK15113 568706004352 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 568706004353 C-terminal domain interface [polypeptide binding]; other site 568706004354 GSH binding site (G-site) [chemical binding]; other site 568706004355 dimer interface [polypeptide binding]; other site 568706004356 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 568706004357 N-terminal domain interface [polypeptide binding]; other site 568706004360 DinB family; Region: DinB; cl17821 568706004361 DinB superfamily; Region: DinB_2; pfam12867 568706004362 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 568706004363 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 568706004364 Coenzyme A binding pocket [chemical binding]; other site 568706004365 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 568706004366 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 568706004367 HSP70 interaction site [polypeptide binding]; other site 568706004368 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 568706004369 substrate binding site [polypeptide binding]; other site 568706004371 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 568706004372 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 568706004373 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 568706004374 MPT binding site; other site 568706004375 trimer interface [polypeptide binding]; other site 568706004376 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 568706004377 Peptidase family M23; Region: Peptidase_M23; pfam01551 568706004378 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 568706004379 rRNA binding site [nucleotide binding]; other site 568706004380 predicted 30S ribosome binding site; other site 568706004381 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004382 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004383 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004384 Integrase core domain; Region: rve; pfam00665 568706004385 Integrase core domain; Region: rve_3; pfam13683 568706004386 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 568706004387 GAF domain; Region: GAF; cl17456 568706004388 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 568706004389 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 568706004390 Walker A motif; other site 568706004391 ATP binding site [chemical binding]; other site 568706004392 Walker B motif; other site 568706004393 arginine finger; other site 568706004394 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 568706004395 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 568706004396 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 568706004397 NAD(P) binding site [chemical binding]; other site 568706004398 catalytic residues [active] 568706004399 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 568706004400 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 568706004402 Predicted membrane protein [Function unknown]; Region: COG2733 568706004403 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706004404 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706004405 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 568706004406 dimerization interface [polypeptide binding]; other site 568706004407 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 568706004408 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 568706004409 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 568706004410 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 568706004411 conserved cys residue [active] 568706004412 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568706004413 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568706004414 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 568706004415 Domain of unknown function DUF302; Region: DUF302; cl01364 568706004417 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 568706004418 dimerization interface [polypeptide binding]; other site 568706004419 putative DNA binding site [nucleotide binding]; other site 568706004420 putative Zn2+ binding site [ion binding]; other site 568706004421 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 568706004422 putative hydrophobic ligand binding site [chemical binding]; other site 568706004424 Transcriptional regulators [Transcription]; Region: GntR; COG1802 568706004425 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706004426 DNA-binding site [nucleotide binding]; DNA binding site 568706004427 FCD domain; Region: FCD; pfam07729 568706004428 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 568706004429 ZIP Zinc transporter; Region: Zip; pfam02535 568706004430 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 568706004431 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 568706004432 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706004433 Walker A/P-loop; other site 568706004434 ATP binding site [chemical binding]; other site 568706004435 Q-loop/lid; other site 568706004436 ABC transporter signature motif; other site 568706004437 Walker B; other site 568706004438 D-loop; other site 568706004439 H-loop/switch region; other site 568706004440 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004441 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004442 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004443 Integrase core domain; Region: rve; pfam00665 568706004444 Integrase core domain; Region: rve_3; pfam13683 568706004446 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004447 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004448 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004449 Integrase core domain; Region: rve; pfam00665 568706004450 Integrase core domain; Region: rve_3; pfam13683 568706004451 Uncharacterized conserved protein [Function unknown]; Region: COG3791 568706004452 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 568706004453 putative substrate translocation pore; other site 568706004454 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 568706004455 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 568706004456 dimer interface [polypeptide binding]; other site 568706004457 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 568706004458 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 568706004459 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 568706004460 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568706004461 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 568706004462 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 568706004463 XdhC Rossmann domain; Region: XdhC_C; pfam13478 568706004464 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 568706004465 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 568706004466 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 568706004467 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 568706004468 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 568706004469 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 568706004470 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 568706004471 catalytic loop [active] 568706004472 iron binding site [ion binding]; other site 568706004473 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 568706004474 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 568706004475 LysR family transcriptional regulator; Provisional; Region: PRK14997 568706004476 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706004477 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 568706004478 putative effector binding pocket; other site 568706004479 putative dimerization interface [polypeptide binding]; other site 568706004480 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 568706004481 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 568706004484 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706004485 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706004486 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706004487 glutathione reductase; Validated; Region: PRK06116 568706004488 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 568706004489 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568706004490 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 568706004491 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004492 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004493 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004494 Integrase core domain; Region: rve; pfam00665 568706004495 Integrase core domain; Region: rve_3; pfam13683 568706004497 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706004498 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 568706004499 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 568706004500 active site 568706004501 catalytic site [active] 568706004502 Zn binding site [ion binding]; other site 568706004503 tetramer interface [polypeptide binding]; other site 568706004504 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 568706004505 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 568706004506 Amidase; Region: Amidase; cl11426 568706004507 short chain dehydrogenase; Provisional; Region: PRK06057 568706004508 classical (c) SDRs; Region: SDR_c; cd05233 568706004509 NAD(P) binding site [chemical binding]; other site 568706004510 active site 568706004511 Uncharacterized conserved protein [Function unknown]; Region: COG5476 568706004512 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 568706004513 MlrC C-terminus; Region: MlrC_C; pfam07171 568706004514 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 568706004515 putative catalytic site [active] 568706004516 putative phosphate binding site [ion binding]; other site 568706004517 active site 568706004518 metal binding site A [ion binding]; metal-binding site 568706004519 DNA binding site [nucleotide binding] 568706004520 putative AP binding site [nucleotide binding]; other site 568706004521 putative metal binding site B [ion binding]; other site 568706004522 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 568706004523 NnrS protein; Region: NnrS; pfam05940 568706004524 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 568706004525 apolar tunnel; other site 568706004526 heme binding site [chemical binding]; other site 568706004527 dimerization interface [polypeptide binding]; other site 568706004528 Rdx family; Region: Rdx; cl01407 568706004529 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004530 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004531 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004532 Integrase core domain; Region: rve; pfam00665 568706004533 Integrase core domain; Region: rve_3; pfam13683 568706004535 DoxX; Region: DoxX; pfam07681 568706004536 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 568706004537 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 568706004538 active site 568706004539 Zn binding site [ion binding]; other site 568706004540 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 568706004541 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 568706004542 active site 568706004543 catalytic tetrad [active] 568706004544 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 568706004545 Ligand Binding Site [chemical binding]; other site 568706004547 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 568706004548 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706004549 DNA-binding site [nucleotide binding]; DNA binding site 568706004550 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 568706004551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706004552 homodimer interface [polypeptide binding]; other site 568706004553 catalytic residue [active] 568706004554 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 568706004555 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 568706004556 catalytic residue [active] 568706004557 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 568706004558 dimer interface [polypeptide binding]; other site 568706004559 pyridoxamine kinase; Validated; Region: PRK05756 568706004560 pyridoxal binding site [chemical binding]; other site 568706004561 ATP binding site [chemical binding]; other site 568706004563 malto-oligosyltrehalose synthase; Region: trehalose_TreY; TIGR02401 568706004564 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 568706004565 active site 568706004566 catalytic site [active] 568706004568 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004569 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004570 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004571 Integrase core domain; Region: rve; pfam00665 568706004572 Integrase core domain; Region: rve_3; pfam13683 568706004573 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 568706004574 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 568706004575 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 568706004576 catalytic site [active] 568706004577 active site 568706004578 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 568706004579 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 568706004580 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 568706004581 active site 568706004582 catalytic site [active] 568706004583 glycogen branching enzyme; Provisional; Region: PRK05402 568706004584 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 568706004585 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 568706004586 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 568706004587 active site 568706004588 catalytic site [active] 568706004589 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 568706004591 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004592 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004593 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004594 Integrase core domain; Region: rve; pfam00665 568706004595 Integrase core domain; Region: rve_3; pfam13683 568706004597 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004598 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004599 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004600 Integrase core domain; Region: rve; pfam00665 568706004601 Integrase core domain; Region: rve_3; pfam13683 568706004602 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 568706004603 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 568706004604 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 568706004605 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 568706004606 DNA binding residues [nucleotide binding] 568706004607 transcriptional activator FlhD; Provisional; Region: PRK02909 568706004608 transcriptional activator FlhC; Provisional; Region: PRK12722 568706004609 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 568706004610 flagellar motor protein MotA; Validated; Region: PRK09110 568706004611 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 568706004612 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 568706004613 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 568706004614 ligand binding site [chemical binding]; other site 568706004616 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 568706004617 putative binding surface; other site 568706004618 active site 568706004619 CheY binding; Region: CheY-binding; pfam09078 568706004620 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 568706004621 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 568706004622 ATP binding site [chemical binding]; other site 568706004623 Mg2+ binding site [ion binding]; other site 568706004624 G-X-G motif; other site 568706004625 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 568706004626 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 568706004627 putative CheA interaction surface; other site 568706004628 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 568706004629 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 568706004630 dimer interface [polypeptide binding]; other site 568706004631 ligand binding site [chemical binding]; other site 568706004632 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 568706004633 dimerization interface [polypeptide binding]; other site 568706004634 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 568706004635 dimer interface [polypeptide binding]; other site 568706004636 putative CheW interface [polypeptide binding]; other site 568706004638 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 568706004639 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 568706004640 active site 568706004641 phosphorylation site [posttranslational modification] 568706004642 intermolecular recognition site; other site 568706004643 dimerization interface [polypeptide binding]; other site 568706004644 CheB methylesterase; Region: CheB_methylest; pfam01339 568706004645 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 568706004646 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 568706004647 active site 568706004648 phosphorylation site [posttranslational modification] 568706004649 intermolecular recognition site; other site 568706004650 dimerization interface [polypeptide binding]; other site 568706004651 chemotaxis regulator CheZ; Provisional; Region: PRK11166 568706004652 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706004653 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706004654 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706004655 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 568706004656 Heavy-metal-associated domain; Region: HMA; pfam00403 568706004657 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 568706004658 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 568706004659 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 568706004660 DNA binding residues [nucleotide binding] 568706004661 dimer interface [polypeptide binding]; other site 568706004662 putative metal binding site [ion binding]; other site 568706004663 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004664 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004665 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004666 Integrase core domain; Region: rve; pfam00665 568706004667 Integrase core domain; Region: rve_3; pfam13683 568706004668 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 568706004669 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 568706004670 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 568706004671 Walker A/P-loop; other site 568706004672 ATP binding site [chemical binding]; other site 568706004673 Q-loop/lid; other site 568706004674 ABC transporter signature motif; other site 568706004675 Walker B; other site 568706004676 D-loop; other site 568706004677 H-loop/switch region; other site 568706004678 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 568706004679 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 568706004680 Flagellar regulator YcgR; Region: YcgR; pfam07317 568706004681 PilZ domain; Region: PilZ; pfam07238 568706004682 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 568706004683 dimerization interface [polypeptide binding]; other site 568706004684 substrate binding site [chemical binding]; other site 568706004685 active site 568706004686 calcium binding site [ion binding]; other site 568706004689 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 568706004690 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 568706004691 carboxyltransferase (CT) interaction site; other site 568706004692 biotinylation site [posttranslational modification]; other site 568706004693 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 568706004694 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 568706004695 active site 568706004696 catalytic residues [active] 568706004697 metal binding site [ion binding]; metal-binding site 568706004698 homodimer binding site [polypeptide binding]; other site 568706004699 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 568706004700 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 568706004701 NAD(P) binding site [chemical binding]; other site 568706004702 active site 568706004703 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 568706004704 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706004705 DNA-binding site [nucleotide binding]; DNA binding site 568706004706 UTRA domain; Region: UTRA; pfam07702 568706004707 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 568706004708 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 568706004709 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 568706004710 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 568706004712 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004713 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004714 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004715 Integrase core domain; Region: rve; pfam00665 568706004716 Integrase core domain; Region: rve_3; pfam13683 568706004717 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 568706004718 carboxyltransferase (CT) interaction site; other site 568706004719 biotinylation site [posttranslational modification]; other site 568706004720 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 568706004721 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 568706004722 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 568706004723 CoA binding domain; Region: CoA_binding_2; pfam13380 568706004724 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 568706004725 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 568706004726 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 568706004727 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 568706004728 DctM-like transporters; Region: DctM; pfam06808 568706004729 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 568706004731 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 568706004732 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568706004733 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 568706004734 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 568706004735 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004736 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004737 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004738 Integrase core domain; Region: rve; pfam00665 568706004739 Integrase core domain; Region: rve_3; pfam13683 568706004740 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 568706004741 FtsJ-like methyltransferase; Region: FtsJ; cl17430 568706004742 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 568706004743 FtsH Extracellular; Region: FtsH_ext; pfam06480 568706004744 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 568706004745 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 568706004746 Walker A motif; other site 568706004747 ATP binding site [chemical binding]; other site 568706004748 Walker B motif; other site 568706004749 arginine finger; other site 568706004750 Peptidase family M41; Region: Peptidase_M41; pfam01434 568706004751 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 568706004752 dihydropteroate synthase; Region: DHPS; TIGR01496 568706004753 substrate binding pocket [chemical binding]; other site 568706004754 dimer interface [polypeptide binding]; other site 568706004755 inhibitor binding site; inhibition site 568706004756 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 568706004757 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 568706004758 active site 568706004759 substrate binding site [chemical binding]; other site 568706004760 metal binding site [ion binding]; metal-binding site 568706004761 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 568706004762 exopolyphosphatase; Region: exo_poly_only; TIGR03706 568706004763 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 568706004764 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 568706004765 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 568706004766 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 568706004767 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 568706004768 putative active site [active] 568706004769 catalytic site [active] 568706004770 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 568706004771 putative domain interface [polypeptide binding]; other site 568706004772 putative active site [active] 568706004773 catalytic site [active] 568706004774 PBP superfamily domain; Region: PBP_like_2; cl17296 568706004775 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 568706004776 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706004777 dimer interface [polypeptide binding]; other site 568706004778 conserved gate region; other site 568706004779 putative PBP binding loops; other site 568706004780 ABC-ATPase subunit interface; other site 568706004781 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 568706004782 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706004783 dimer interface [polypeptide binding]; other site 568706004784 conserved gate region; other site 568706004785 putative PBP binding loops; other site 568706004786 ABC-ATPase subunit interface; other site 568706004787 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 568706004788 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 568706004789 Walker A/P-loop; other site 568706004790 ATP binding site [chemical binding]; other site 568706004791 Q-loop/lid; other site 568706004792 ABC transporter signature motif; other site 568706004793 Walker B; other site 568706004794 D-loop; other site 568706004795 H-loop/switch region; other site 568706004796 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004797 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004798 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004799 Integrase core domain; Region: rve; pfam00665 568706004800 Integrase core domain; Region: rve_3; pfam13683 568706004801 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706004802 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706004803 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 568706004804 putative dimerization interface [polypeptide binding]; other site 568706004805 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706004806 enoyl-CoA hydratase; Provisional; Region: PRK06688 568706004807 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 568706004808 substrate binding site [chemical binding]; other site 568706004809 oxyanion hole (OAH) forming residues; other site 568706004810 trimer interface [polypeptide binding]; other site 568706004811 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 568706004812 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 568706004813 putative active site [active] 568706004814 putative catalytic site [active] 568706004815 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568706004816 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568706004817 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004818 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004819 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004820 Integrase core domain; Region: rve; pfam00665 568706004821 Integrase core domain; Region: rve_3; pfam13683 568706004822 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706004823 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 568706004824 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 568706004825 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 568706004826 homodimer interface [polypeptide binding]; other site 568706004827 NADP binding site [chemical binding]; other site 568706004828 substrate binding site [chemical binding]; other site 568706004829 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 568706004830 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706004831 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706004832 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 568706004833 dimerization interface [polypeptide binding]; other site 568706004834 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 568706004835 active site 568706004836 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 568706004837 dimer interface [polypeptide binding]; other site 568706004838 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 568706004839 hydroxyglutarate oxidase; Provisional; Region: PRK11728 568706004840 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 568706004841 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 568706004842 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 568706004843 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 568706004844 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 568706004845 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 568706004846 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 568706004847 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 568706004848 putative active site [active] 568706004849 putative substrate binding site [chemical binding]; other site 568706004850 putative cosubstrate binding site; other site 568706004851 catalytic site [active] 568706004852 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706004853 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 568706004854 pyrimidine utilization protein D; Region: RutD; TIGR03611 568706004855 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 568706004856 FAD binding domain; Region: FAD_binding_4; pfam01565 568706004857 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 568706004858 dihydrodipicolinate reductase; Provisional; Region: PRK00048 568706004859 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 568706004860 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 568706004861 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 568706004862 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 568706004863 ferric uptake regulator; Provisional; Region: fur; PRK09462 568706004864 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 568706004865 metal binding site 2 [ion binding]; metal-binding site 568706004866 putative DNA binding helix; other site 568706004867 metal binding site 1 [ion binding]; metal-binding site 568706004868 dimer interface [polypeptide binding]; other site 568706004869 structural Zn2+ binding site [ion binding]; other site 568706004870 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 568706004871 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 568706004872 Walker A/P-loop; other site 568706004873 ATP binding site [chemical binding]; other site 568706004874 Q-loop/lid; other site 568706004875 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 568706004876 ABC transporter signature motif; other site 568706004877 Walker B; other site 568706004878 D-loop; other site 568706004879 H-loop/switch region; other site 568706004880 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 568706004881 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 568706004882 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 568706004883 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 568706004884 ferrochelatase; Reviewed; Region: hemH; PRK00035 568706004885 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 568706004886 C-terminal domain interface [polypeptide binding]; other site 568706004887 active site 568706004888 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 568706004889 active site 568706004890 N-terminal domain interface [polypeptide binding]; other site 568706004891 GrpE; Region: GrpE; pfam01025 568706004892 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 568706004893 dimer interface [polypeptide binding]; other site 568706004894 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 568706004895 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 568706004896 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 568706004897 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 568706004898 nucleotide binding site [chemical binding]; other site 568706004899 NEF interaction site [polypeptide binding]; other site 568706004900 SBD interface [polypeptide binding]; other site 568706004901 chaperone protein DnaJ; Provisional; Region: PRK10767 568706004902 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 568706004903 HSP70 interaction site [polypeptide binding]; other site 568706004904 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 568706004905 Zn binding sites [ion binding]; other site 568706004906 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 568706004907 dimer interface [polypeptide binding]; other site 568706004908 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 568706004909 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 568706004910 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 568706004911 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 568706004912 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 568706004913 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 568706004914 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 568706004915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 568706004916 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 568706004917 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 568706004918 Walker A motif; other site 568706004919 ATP binding site [chemical binding]; other site 568706004920 Walker B motif; other site 568706004921 arginine finger; other site 568706004922 Cytochrome c553 [Energy production and conversion]; Region: COG2863 568706004923 Cytochrome c553 [Energy production and conversion]; Region: COG2863 568706004924 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 568706004925 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 568706004926 isocitrate dehydrogenase; Validated; Region: PRK07362 568706004927 isocitrate dehydrogenase; Reviewed; Region: PRK07006 568706004928 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 568706004929 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 568706004930 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 568706004931 O-Antigen ligase; Region: Wzy_C; pfam04932 568706004932 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004933 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004934 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004935 Integrase core domain; Region: rve; pfam00665 568706004936 Integrase core domain; Region: rve_3; pfam13683 568706004937 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 568706004938 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 568706004939 active site 568706004940 phosphorylation site [posttranslational modification] 568706004941 intermolecular recognition site; other site 568706004942 dimerization interface [polypeptide binding]; other site 568706004943 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 568706004944 DNA binding site [nucleotide binding] 568706004945 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 568706004946 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 568706004947 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 568706004948 Ligand Binding Site [chemical binding]; other site 568706004949 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 568706004950 GAF domain; Region: GAF_3; pfam13492 568706004951 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 568706004952 dimer interface [polypeptide binding]; other site 568706004953 phosphorylation site [posttranslational modification] 568706004954 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 568706004955 Mg2+ binding site [ion binding]; other site 568706004956 G-X-G motif; other site 568706004957 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 568706004958 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 568706004959 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 568706004960 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 568706004961 putative solute:sodium symporter small subunit; Region: Na_symport_sm; TIGR03647 568706004962 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 568706004963 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 568706004964 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004965 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004966 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004967 Integrase core domain; Region: rve; pfam00665 568706004968 Integrase core domain; Region: rve_3; pfam13683 568706004969 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 568706004970 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 568706004971 Malic enzyme, N-terminal domain; Region: malic; pfam00390 568706004972 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 568706004973 putative NAD(P) binding site [chemical binding]; other site 568706004974 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 568706004975 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 568706004976 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 568706004977 dimer interface [polypeptide binding]; other site 568706004978 TPP-binding site [chemical binding]; other site 568706004979 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 568706004980 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 568706004981 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 568706004982 putative DNA binding site [nucleotide binding]; other site 568706004983 putative Zn2+ binding site [ion binding]; other site 568706004984 AsnC family; Region: AsnC_trans_reg; pfam01037 568706004986 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706004987 Winged helix-turn helix; Region: HTH_29; pfam13551 568706004988 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706004989 Integrase core domain; Region: rve; pfam00665 568706004990 Integrase core domain; Region: rve_3; pfam13683 568706004991 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 568706004992 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 568706004993 TPP-binding site [chemical binding]; other site 568706004994 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 568706004995 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 568706004996 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 568706004997 E3 interaction surface; other site 568706004998 lipoyl attachment site [posttranslational modification]; other site 568706004999 e3 binding domain; Region: E3_binding; pfam02817 568706005000 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 568706005001 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 568706005002 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568706005003 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 568706005004 Predicted ATPase [General function prediction only]; Region: COG1485 568706005005 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706005006 Walker B; other site 568706005007 D-loop; other site 568706005008 H-loop/switch region; other site 568706005009 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 568706005010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706005011 NAD(P) binding site [chemical binding]; other site 568706005012 active site 568706005013 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 568706005014 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706005015 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 568706005016 dimerization interface [polypeptide binding]; other site 568706005017 substrate binding pocket [chemical binding]; other site 568706005018 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005019 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005020 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005021 Integrase core domain; Region: rve; pfam00665 568706005022 Integrase core domain; Region: rve_3; pfam13683 568706005023 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706005024 short chain dehydrogenase; Provisional; Region: PRK07577 568706005025 classical (c) SDRs; Region: SDR_c; cd05233 568706005026 NAD(P) binding site [chemical binding]; other site 568706005027 active site 568706005029 RNA polymerase sigma factor; Provisional; Region: PRK12528 568706005030 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 568706005031 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 568706005032 DNA binding residues [nucleotide binding] 568706005033 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 568706005034 FecR protein; Region: FecR; pfam04773 568706005035 Secretin and TonB N terminus short domain; Region: STN; smart00965 568706005036 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 568706005037 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 568706005038 N-terminal plug; other site 568706005039 ligand-binding site [chemical binding]; other site 568706005041 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 568706005042 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005043 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005044 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005045 Integrase core domain; Region: rve; pfam00665 568706005046 Integrase core domain; Region: rve_3; pfam13683 568706005047 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 568706005048 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 568706005049 active site 568706005050 HIGH motif; other site 568706005051 dimer interface [polypeptide binding]; other site 568706005052 KMSKS motif; other site 568706005053 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005054 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005055 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005056 Integrase core domain; Region: rve; pfam00665 568706005057 Integrase core domain; Region: rve_3; pfam13683 568706005058 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 568706005059 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 568706005060 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 568706005061 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 568706005062 RNA binding site [nucleotide binding]; other site 568706005063 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 568706005064 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 568706005065 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 568706005066 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 568706005067 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 568706005068 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 568706005069 RNA binding surface [nucleotide binding]; other site 568706005070 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 568706005071 active site 568706005072 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 568706005073 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 568706005074 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 568706005075 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 568706005076 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 568706005077 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 568706005078 NAD(P) binding site [chemical binding]; other site 568706005079 homotetramer interface [polypeptide binding]; other site 568706005080 homodimer interface [polypeptide binding]; other site 568706005081 active site 568706005082 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 568706005083 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 568706005084 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 568706005085 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 568706005086 Fe2+ transport protein; Region: Iron_transport; pfam10634 568706005087 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 568706005088 Iron permease FTR1 family; Region: FTR1; cl00475 568706005089 4Fe-4S binding domain; Region: Fer4_5; pfam12801 568706005090 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 568706005091 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005092 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005093 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005094 Integrase core domain; Region: rve; pfam00665 568706005095 Integrase core domain; Region: rve_3; pfam13683 568706005096 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005097 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005098 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 568706005099 Integrase core domain; Region: rve; pfam00665 568706005100 Integrase core domain; Region: rve_3; pfam13683 568706005101 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005102 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005103 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005104 Integrase core domain; Region: rve; pfam00665 568706005105 Integrase core domain; Region: rve_3; pfam13683 568706005106 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 568706005107 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568706005108 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568706005109 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568706005110 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 568706005111 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 568706005112 Walker A/P-loop; other site 568706005113 ATP binding site [chemical binding]; other site 568706005114 Q-loop/lid; other site 568706005115 ABC transporter signature motif; other site 568706005116 Walker B; other site 568706005117 D-loop; other site 568706005118 H-loop/switch region; other site 568706005119 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 568706005120 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 568706005121 Walker A/P-loop; other site 568706005122 ATP binding site [chemical binding]; other site 568706005123 Q-loop/lid; other site 568706005124 ABC transporter signature motif; other site 568706005125 Walker B; other site 568706005126 D-loop; other site 568706005127 H-loop/switch region; other site 568706005129 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005130 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005131 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005132 Integrase core domain; Region: rve; pfam00665 568706005133 Integrase core domain; Region: rve_3; pfam13683 568706005134 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 568706005135 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 568706005136 classical (c) SDRs; Region: SDR_c; cd05233 568706005137 NAD(P) binding site [chemical binding]; other site 568706005138 active site 568706005139 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706005140 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 568706005142 MoxR-like ATPases [General function prediction only]; Region: COG0714 568706005143 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 568706005144 Walker A motif; other site 568706005145 ATP binding site [chemical binding]; other site 568706005146 Walker B motif; other site 568706005147 arginine finger; other site 568706005148 Protein of unknown function DUF58; Region: DUF58; pfam01882 568706005150 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 568706005151 metal ion-dependent adhesion site (MIDAS); other site 568706005152 von Willebrand factor type A domain; Region: VWA_2; pfam13519 568706005153 Oxygen tolerance; Region: BatD; pfam13584 568706005154 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 568706005155 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 568706005156 motif II; other site 568706005157 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 568706005158 Sulfatase; Region: Sulfatase; pfam00884 568706005160 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005161 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005162 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005163 Integrase core domain; Region: rve; pfam00665 568706005164 Integrase core domain; Region: rve_3; pfam13683 568706005165 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 568706005166 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 568706005167 putative DNA binding site [nucleotide binding]; other site 568706005168 putative Zn2+ binding site [ion binding]; other site 568706005169 AsnC family; Region: AsnC_trans_reg; pfam01037 568706005170 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 568706005171 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 568706005172 Flavoprotein; Region: Flavoprotein; pfam02441 568706005173 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 568706005174 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 568706005175 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 568706005176 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 568706005177 active site 568706005178 HIGH motif; other site 568706005179 nucleotide binding site [chemical binding]; other site 568706005180 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 568706005181 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 568706005182 active site 568706005183 KMSKS motif; other site 568706005184 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 568706005185 tRNA binding surface [nucleotide binding]; other site 568706005186 anticodon binding site; other site 568706005187 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 568706005188 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 568706005189 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 568706005190 active site 568706005191 Riboflavin kinase; Region: Flavokinase; smart00904 568706005192 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 568706005193 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 568706005194 active site 568706005195 substrate binding site [chemical binding]; other site 568706005196 cosubstrate binding site; other site 568706005197 catalytic site [active] 568706005198 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005199 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005200 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005201 Integrase core domain; Region: rve; pfam00665 568706005202 Integrase core domain; Region: rve_3; pfam13683 568706005203 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 568706005204 Fatty acid desaturase; Region: FA_desaturase; pfam00487 568706005205 Di-iron ligands [ion binding]; other site 568706005206 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 568706005207 Part of AAA domain; Region: AAA_19; pfam13245 568706005208 Family description; Region: UvrD_C_2; pfam13538 568706005209 Secretin and TonB N terminus short domain; Region: STN; smart00965 568706005210 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 568706005211 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 568706005212 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 568706005213 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 568706005214 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 568706005215 ABC transporter; Region: ABC_tran_2; pfam12848 568706005216 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 568706005217 HemK family putative methylases; Region: hemK_fam; TIGR00536 568706005218 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 568706005219 S-adenosylmethionine binding site [chemical binding]; other site 568706005220 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 568706005221 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 568706005222 metal binding site [ion binding]; metal-binding site 568706005223 dimer interface [polypeptide binding]; other site 568706005224 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 568706005225 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 568706005226 trimer interface [polypeptide binding]; other site 568706005227 active site 568706005228 substrate binding site [chemical binding]; other site 568706005229 CoA binding site [chemical binding]; other site 568706005230 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 568706005231 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 568706005232 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706005233 homodimer interface [polypeptide binding]; other site 568706005234 catalytic residue [active] 568706005235 Autotransporter beta-domain; Region: Autotransporter; pfam03797 568706005236 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 568706005237 DNA-binding site [nucleotide binding]; DNA binding site 568706005238 RNA-binding motif; other site 568706005239 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 568706005240 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005241 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005242 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005243 Integrase core domain; Region: rve; pfam00665 568706005244 Integrase core domain; Region: rve_3; pfam13683 568706005245 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 568706005246 DNA-binding site [nucleotide binding]; DNA binding site 568706005247 RNA-binding motif; other site 568706005248 hypothetical protein; Provisional; Region: PRK05208 568706005249 trigger factor; Provisional; Region: tig; PRK01490 568706005250 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 568706005251 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 568706005252 Clp protease; Region: CLP_protease; pfam00574 568706005253 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 568706005254 oligomer interface [polypeptide binding]; other site 568706005255 active site residues [active] 568706005256 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 568706005257 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 568706005258 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 568706005259 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 568706005260 Walker A motif; other site 568706005261 ATP binding site [chemical binding]; other site 568706005262 Walker B motif; other site 568706005263 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 568706005264 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 568706005265 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 568706005266 Walker A motif; other site 568706005267 ATP binding site [chemical binding]; other site 568706005268 Walker B motif; other site 568706005269 arginine finger; other site 568706005270 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 568706005271 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 568706005272 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706005273 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 568706005274 dimerization interface [polypeptide binding]; other site 568706005275 substrate binding pocket [chemical binding]; other site 568706005276 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568706005277 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568706005278 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706005279 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 568706005280 putative active site [active] 568706005281 putative catalytic site [active] 568706005282 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 568706005283 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 568706005284 substrate binding site [chemical binding]; other site 568706005285 oxyanion hole (OAH) forming residues; other site 568706005286 trimer interface [polypeptide binding]; other site 568706005287 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 568706005288 DUF35 OB-fold domain; Region: DUF35; pfam01796 568706005289 thiolase; Provisional; Region: PRK06158 568706005290 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 568706005291 active site 568706005292 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 568706005293 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706005294 NAD(P) binding site [chemical binding]; other site 568706005295 active site 568706005298 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 568706005299 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 568706005302 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005303 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005304 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005305 Integrase core domain; Region: rve; pfam00665 568706005306 Integrase core domain; Region: rve_3; pfam13683 568706005307 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005308 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005309 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005310 Integrase core domain; Region: rve; pfam00665 568706005311 Integrase core domain; Region: rve_3; pfam13683 568706005312 LexA repressor; Validated; Region: PRK00215 568706005313 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 568706005314 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 568706005315 Catalytic site [active] 568706005316 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 568706005317 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 568706005318 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706005319 homodimer interface [polypeptide binding]; other site 568706005320 catalytic residue [active] 568706005321 excinuclease ABC subunit B; Provisional; Region: PRK05298 568706005322 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 568706005323 ATP binding site [chemical binding]; other site 568706005324 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 568706005325 nucleotide binding region [chemical binding]; other site 568706005326 ATP-binding site [chemical binding]; other site 568706005327 Ultra-violet resistance protein B; Region: UvrB; pfam12344 568706005328 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 568706005329 Low molecular weight phosphatase family; Region: LMWPc; cd00115 568706005330 active site 568706005331 Predicted transcriptional regulator [Transcription]; Region: COG1959 568706005332 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 568706005333 cysteine desulfurase; Provisional; Region: PRK14012 568706005334 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 568706005335 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568706005336 catalytic residue [active] 568706005337 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 568706005338 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 568706005339 trimerization site [polypeptide binding]; other site 568706005340 active site 568706005341 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 568706005342 co-chaperone HscB; Provisional; Region: hscB; PRK03578 568706005343 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 568706005344 HSP70 interaction site [polypeptide binding]; other site 568706005345 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 568706005346 chaperone protein HscA; Provisional; Region: hscA; PRK05183 568706005347 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 568706005348 nucleotide binding site [chemical binding]; other site 568706005349 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 568706005350 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 568706005351 catalytic loop [active] 568706005352 iron binding site [ion binding]; other site 568706005353 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 568706005354 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 568706005355 active site 568706005356 dimer interfaces [polypeptide binding]; other site 568706005357 catalytic residues [active] 568706005358 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 568706005359 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 568706005360 substrate binding site [chemical binding]; other site 568706005361 oxyanion hole (OAH) forming residues; other site 568706005362 trimer interface [polypeptide binding]; other site 568706005363 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 568706005364 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005365 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005366 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005367 Integrase core domain; Region: rve; pfam00665 568706005368 Integrase core domain; Region: rve_3; pfam13683 568706005370 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 568706005371 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 568706005372 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 568706005373 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706005374 DNA-binding site [nucleotide binding]; DNA binding site 568706005375 UTRA domain; Region: UTRA; pfam07702 568706005376 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 568706005377 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 568706005378 MOSC domain; Region: MOSC; pfam03473 568706005379 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 568706005380 tetramerization interface [polypeptide binding]; other site 568706005381 active site 568706005382 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 568706005383 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 568706005384 catalytic loop [active] 568706005385 iron binding site [ion binding]; other site 568706005386 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 568706005387 FAD binding pocket [chemical binding]; other site 568706005388 FAD binding motif [chemical binding]; other site 568706005389 phosphate binding motif [ion binding]; other site 568706005390 beta-alpha-beta structure motif; other site 568706005391 NAD binding pocket [chemical binding]; other site 568706005392 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 568706005393 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 568706005394 hydroxyglutarate oxidase; Provisional; Region: PRK11728 568706005395 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 568706005396 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 568706005397 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706005398 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706005399 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 568706005400 putative dimerization interface [polypeptide binding]; other site 568706005401 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 568706005402 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 568706005403 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 568706005404 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 568706005405 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706005406 dimer interface [polypeptide binding]; other site 568706005407 conserved gate region; other site 568706005408 putative PBP binding loops; other site 568706005409 ABC-ATPase subunit interface; other site 568706005410 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 568706005411 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706005412 dimer interface [polypeptide binding]; other site 568706005413 conserved gate region; other site 568706005414 putative PBP binding loops; other site 568706005415 ABC-ATPase subunit interface; other site 568706005416 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 568706005417 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 568706005418 Walker A/P-loop; other site 568706005419 ATP binding site [chemical binding]; other site 568706005420 Q-loop/lid; other site 568706005421 ABC transporter signature motif; other site 568706005422 Walker B; other site 568706005423 D-loop; other site 568706005424 H-loop/switch region; other site 568706005425 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 568706005426 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 568706005427 Walker A/P-loop; other site 568706005428 ATP binding site [chemical binding]; other site 568706005429 Q-loop/lid; other site 568706005430 ABC transporter signature motif; other site 568706005431 Walker B; other site 568706005432 D-loop; other site 568706005433 H-loop/switch region; other site 568706005434 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 568706005435 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 568706005436 Amidase; Region: Amidase; pfam01425 568706005438 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 568706005439 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 568706005440 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005441 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005442 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005443 Integrase core domain; Region: rve; pfam00665 568706005444 Integrase core domain; Region: rve_3; pfam13683 568706005445 Type II/IV secretion system protein; Region: T2SE; pfam00437 568706005446 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 568706005447 Walker A motif; other site 568706005448 ATP binding site [chemical binding]; other site 568706005449 Walker B motif; other site 568706005450 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 568706005451 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 568706005452 motif 1; other site 568706005453 active site 568706005454 motif 2; other site 568706005455 motif 3; other site 568706005456 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 568706005457 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 568706005458 CPxP motif; other site 568706005459 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005460 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005461 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 568706005462 Integrase core domain; Region: rve; pfam00665 568706005463 Integrase core domain; Region: rve_3; pfam13683 568706005464 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005465 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005466 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005467 Integrase core domain; Region: rve; pfam00665 568706005468 Integrase core domain; Region: rve_3; pfam13683 568706005470 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706005471 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706005472 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706005473 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 568706005474 putative dimerization interface [polypeptide binding]; other site 568706005476 hypothetical protein; Provisional; Region: PRK04262 568706005477 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 568706005478 dimer interface [polypeptide binding]; other site 568706005479 active site 568706005480 DUF35 OB-fold domain; Region: DUF35; pfam01796 568706005481 acetyl-CoA acetyltransferase; Validated; Region: PRK06157 568706005482 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 568706005483 active site 568706005484 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 568706005485 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 568706005486 acyl-activating enzyme (AAE) consensus motif; other site 568706005487 AMP binding site [chemical binding]; other site 568706005488 active site 568706005489 CoA binding site [chemical binding]; other site 568706005490 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 568706005491 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 568706005492 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568706005493 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568706005494 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 568706005495 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 568706005496 catalytic loop [active] 568706005497 iron binding site [ion binding]; other site 568706005498 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 568706005499 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706005500 NAD(P) binding site [chemical binding]; other site 568706005501 active site 568706005502 enoyl-CoA hydratase; Provisional; Region: PRK06688 568706005503 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 568706005504 substrate binding site [chemical binding]; other site 568706005505 oxyanion hole (OAH) forming residues; other site 568706005506 trimer interface [polypeptide binding]; other site 568706005507 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 568706005508 inter-subunit interface; other site 568706005509 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 568706005510 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 568706005511 iron-sulfur cluster [ion binding]; other site 568706005512 [2Fe-2S] cluster binding site [ion binding]; other site 568706005513 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 568706005514 putative alpha subunit interface [polypeptide binding]; other site 568706005515 putative active site [active] 568706005516 putative substrate binding site [chemical binding]; other site 568706005517 Fe binding site [ion binding]; other site 568706005518 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 568706005519 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 568706005520 putative ligand binding site [chemical binding]; other site 568706005521 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 568706005522 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 568706005523 TM-ABC transporter signature motif; other site 568706005525 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005526 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005527 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005528 Integrase core domain; Region: rve; pfam00665 568706005529 Integrase core domain; Region: rve_3; pfam13683 568706005531 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 568706005532 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 568706005533 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 568706005534 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 568706005535 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 568706005536 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 568706005537 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 568706005538 DNA binding residues [nucleotide binding] 568706005539 DNA primase, catalytic core; Region: dnaG; TIGR01391 568706005540 CHC2 zinc finger; Region: zf-CHC2; pfam01807 568706005541 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 568706005542 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 568706005543 active site 568706005544 metal binding site [ion binding]; metal-binding site 568706005545 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 568706005546 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 568706005547 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 568706005548 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 568706005549 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568706005550 active site 568706005551 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 568706005552 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 568706005553 GDP-binding site [chemical binding]; other site 568706005554 ACT binding site; other site 568706005555 IMP binding site; other site 568706005556 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 568706005557 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 568706005558 dimer interface [polypeptide binding]; other site 568706005559 motif 1; other site 568706005560 active site 568706005561 motif 2; other site 568706005562 motif 3; other site 568706005563 HflC protein; Region: hflC; TIGR01932 568706005564 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 568706005565 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 568706005566 HflK protein; Region: hflK; TIGR01933 568706005567 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 568706005568 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 568706005569 HflX GTPase family; Region: HflX; cd01878 568706005570 G1 box; other site 568706005571 GTP/Mg2+ binding site [chemical binding]; other site 568706005572 Switch I region; other site 568706005573 G2 box; other site 568706005574 G3 box; other site 568706005575 Switch II region; other site 568706005576 G4 box; other site 568706005577 G5 box; other site 568706005578 bacterial Hfq-like; Region: Hfq; cd01716 568706005579 hexamer interface [polypeptide binding]; other site 568706005580 Sm1 motif; other site 568706005581 RNA binding site [nucleotide binding]; other site 568706005582 Sm2 motif; other site 568706005583 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 568706005584 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 568706005585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706005586 homodimer interface [polypeptide binding]; other site 568706005587 catalytic residue [active] 568706005588 GTP-binding protein Der; Reviewed; Region: PRK00093 568706005589 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 568706005590 G1 box; other site 568706005591 GTP/Mg2+ binding site [chemical binding]; other site 568706005592 Switch I region; other site 568706005593 G2 box; other site 568706005594 Switch II region; other site 568706005595 G3 box; other site 568706005596 G4 box; other site 568706005597 G5 box; other site 568706005598 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 568706005599 G1 box; other site 568706005600 GTP/Mg2+ binding site [chemical binding]; other site 568706005601 Switch I region; other site 568706005602 G2 box; other site 568706005603 G3 box; other site 568706005604 Switch II region; other site 568706005605 G4 box; other site 568706005606 G5 box; other site 568706005607 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 568706005608 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 568706005609 Trp docking motif [polypeptide binding]; other site 568706005610 active site 568706005611 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 568706005612 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 568706005613 histidyl-tRNA synthetase; Region: hisS; TIGR00442 568706005614 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 568706005615 dimer interface [polypeptide binding]; other site 568706005616 motif 1; other site 568706005617 active site 568706005618 motif 2; other site 568706005619 motif 3; other site 568706005620 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 568706005621 anticodon binding site; other site 568706005622 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 568706005623 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 568706005624 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 568706005625 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 568706005626 non-specific DNA binding site [nucleotide binding]; other site 568706005627 salt bridge; other site 568706005628 sequence-specific DNA binding site [nucleotide binding]; other site 568706005629 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 568706005630 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 568706005631 active site 568706005632 multimer interface [polypeptide binding]; other site 568706005633 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 568706005634 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 568706005635 active site 568706005636 HIGH motif; other site 568706005637 nucleotide binding site [chemical binding]; other site 568706005638 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 568706005639 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 568706005640 active site 568706005641 KMSKS motif; other site 568706005642 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 568706005643 tRNA binding surface [nucleotide binding]; other site 568706005644 anticodon binding site; other site 568706005645 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 568706005646 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 568706005648 sensor protein QseC; Provisional; Region: PRK10337 568706005649 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 568706005650 dimer interface [polypeptide binding]; other site 568706005651 phosphorylation site [posttranslational modification] 568706005652 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 568706005653 ATP binding site [chemical binding]; other site 568706005654 Mg2+ binding site [ion binding]; other site 568706005655 G-X-G motif; other site 568706005656 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005657 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005658 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005659 Integrase core domain; Region: rve; pfam00665 568706005660 Integrase core domain; Region: rve_3; pfam13683 568706005661 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 568706005662 homotrimer interaction site [polypeptide binding]; other site 568706005663 putative active site [active] 568706005664 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 568706005665 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 568706005666 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568706005667 catalytic residue [active] 568706005668 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 568706005669 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 568706005670 RimM N-terminal domain; Region: RimM; pfam01782 568706005671 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 568706005672 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005673 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005674 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005675 Integrase core domain; Region: rve; pfam00665 568706005676 Integrase core domain; Region: rve_3; pfam13683 568706005677 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005678 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005679 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005680 Integrase core domain; Region: rve; pfam00665 568706005681 Integrase core domain; Region: rve_3; pfam13683 568706005682 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 568706005683 TPR repeat; Region: TPR_11; pfam13414 568706005684 binding surface 568706005685 TPR motif; other site 568706005687 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 568706005688 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 568706005689 catalytic residues [active] 568706005690 dimer interface [polypeptide binding]; other site 568706005691 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 568706005692 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 568706005693 C-terminal domain interface [polypeptide binding]; other site 568706005694 GSH binding site (G-site) [chemical binding]; other site 568706005695 dimer interface [polypeptide binding]; other site 568706005696 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 568706005697 N-terminal domain interface [polypeptide binding]; other site 568706005698 putative dimer interface [polypeptide binding]; other site 568706005699 active site 568706005700 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 568706005701 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568706005702 Coenzyme A binding pocket [chemical binding]; other site 568706005703 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 568706005704 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 568706005705 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 568706005706 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 568706005707 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 568706005708 phosphate binding site [ion binding]; other site 568706005709 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 568706005710 RES domain; Region: RES; pfam08808 568706005711 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 568706005712 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 568706005713 Protein of unknown function (DUF423); Region: DUF423; pfam04241 568706005715 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005716 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005717 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005718 Integrase core domain; Region: rve; pfam00665 568706005719 Integrase core domain; Region: rve_3; pfam13683 568706005721 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 568706005722 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 568706005723 C-terminal domain interface [polypeptide binding]; other site 568706005724 GSH binding site (G-site) [chemical binding]; other site 568706005725 dimer interface [polypeptide binding]; other site 568706005726 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 568706005727 dimer interface [polypeptide binding]; other site 568706005728 N-terminal domain interface [polypeptide binding]; other site 568706005729 substrate binding pocket (H-site) [chemical binding]; other site 568706005732 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 568706005733 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 568706005734 Walker A/P-loop; other site 568706005735 ATP binding site [chemical binding]; other site 568706005736 Q-loop/lid; other site 568706005737 ABC transporter signature motif; other site 568706005738 Walker B; other site 568706005739 D-loop; other site 568706005740 H-loop/switch region; other site 568706005741 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 568706005742 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 568706005743 Walker A/P-loop; other site 568706005744 ATP binding site [chemical binding]; other site 568706005745 Q-loop/lid; other site 568706005746 ABC transporter signature motif; other site 568706005747 Walker B; other site 568706005748 D-loop; other site 568706005749 H-loop/switch region; other site 568706005750 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 568706005751 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 568706005752 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 568706005753 TM-ABC transporter signature motif; other site 568706005754 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 568706005755 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 568706005756 TM-ABC transporter signature motif; other site 568706005757 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 568706005758 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 568706005759 dimerization interface [polypeptide binding]; other site 568706005760 ligand binding site [chemical binding]; other site 568706005761 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 568706005762 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 568706005763 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 568706005764 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 568706005765 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 568706005766 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706005767 dimer interface [polypeptide binding]; other site 568706005768 conserved gate region; other site 568706005769 putative PBP binding loops; other site 568706005770 ABC-ATPase subunit interface; other site 568706005771 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 568706005772 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706005773 dimer interface [polypeptide binding]; other site 568706005774 conserved gate region; other site 568706005775 putative PBP binding loops; other site 568706005776 ABC-ATPase subunit interface; other site 568706005777 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 568706005778 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 568706005779 Walker A/P-loop; other site 568706005780 ATP binding site [chemical binding]; other site 568706005781 Q-loop/lid; other site 568706005782 ABC transporter signature motif; other site 568706005783 Walker B; other site 568706005784 D-loop; other site 568706005785 H-loop/switch region; other site 568706005786 TOBE domain; Region: TOBE_2; pfam08402 568706005787 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 568706005788 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 568706005789 dimerization interface [polypeptide binding]; other site 568706005790 ligand binding site [chemical binding]; other site 568706005791 Serine hydrolase; Region: Ser_hydrolase; pfam06821 568706005792 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 568706005793 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005794 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005795 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005796 Integrase core domain; Region: rve; pfam00665 568706005797 Integrase core domain; Region: rve_3; pfam13683 568706005798 Sulfatase; Region: Sulfatase; cl17466 568706005799 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 568706005800 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 568706005801 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 568706005802 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 568706005803 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 568706005804 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 568706005805 NAD binding site [chemical binding]; other site 568706005806 substrate binding site [chemical binding]; other site 568706005807 homodimer interface [polypeptide binding]; other site 568706005808 active site 568706005809 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 568706005810 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 568706005811 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 568706005812 polysaccharide export protein Wza; Provisional; Region: PRK15078 568706005813 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 568706005815 Vi polysaccharide biosynthesis protein TviE; Provisional; Region: PRK15179 568706005816 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 568706005817 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 568706005818 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 568706005819 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 568706005820 Walker A/P-loop; other site 568706005821 ATP binding site [chemical binding]; other site 568706005822 Q-loop/lid; other site 568706005823 ABC transporter signature motif; other site 568706005824 Walker B; other site 568706005825 D-loop; other site 568706005826 H-loop/switch region; other site 568706005827 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 568706005828 ABC-2 type transporter; Region: ABC2_membrane; cl17235 568706005829 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 568706005830 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 568706005831 active site 568706005834 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 568706005835 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 568706005836 dimerization interface [polypeptide binding]; other site 568706005837 DPS ferroxidase diiron center [ion binding]; other site 568706005838 ion pore; other site 568706005839 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 568706005840 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 568706005841 tetrameric interface [polypeptide binding]; other site 568706005842 NAD binding site [chemical binding]; other site 568706005843 catalytic residues [active] 568706005844 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706005845 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706005846 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 568706005847 putative effector binding pocket; other site 568706005848 dimerization interface [polypeptide binding]; other site 568706005849 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 568706005850 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706005851 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 568706005852 dimerization interface [polypeptide binding]; other site 568706005853 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 568706005854 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 568706005855 generic binding surface II; other site 568706005856 ssDNA binding site; other site 568706005857 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 568706005858 ATP binding site [chemical binding]; other site 568706005859 putative Mg++ binding site [ion binding]; other site 568706005860 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 568706005861 nucleotide binding region [chemical binding]; other site 568706005862 ATP-binding site [chemical binding]; other site 568706005863 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 568706005864 homotrimer interaction site [polypeptide binding]; other site 568706005865 putative active site [active] 568706005867 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 568706005868 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 568706005869 active site 568706005870 catalytic tetrad [active] 568706005872 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706005873 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706005874 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 568706005875 putative effector binding pocket; other site 568706005876 dimerization interface [polypeptide binding]; other site 568706005877 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 568706005878 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 568706005879 FAD binding pocket [chemical binding]; other site 568706005880 FAD binding motif [chemical binding]; other site 568706005881 phosphate binding motif [ion binding]; other site 568706005882 beta-alpha-beta structure motif; other site 568706005883 NAD binding pocket [chemical binding]; other site 568706005884 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 568706005885 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 568706005886 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 568706005887 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706005888 dimer interface [polypeptide binding]; other site 568706005889 conserved gate region; other site 568706005890 putative PBP binding loops; other site 568706005891 ABC-ATPase subunit interface; other site 568706005892 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706005893 dimer interface [polypeptide binding]; other site 568706005894 conserved gate region; other site 568706005895 ABC-ATPase subunit interface; other site 568706005897 Pirin-related protein [General function prediction only]; Region: COG1741 568706005898 Pirin; Region: Pirin; pfam02678 568706005899 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 568706005900 Pirin-related protein [General function prediction only]; Region: COG1741 568706005901 Pirin; Region: Pirin; pfam02678 568706005902 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706005903 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 568706005904 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 568706005905 dimerization interface [polypeptide binding]; other site 568706005906 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 568706005907 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 568706005908 active site 568706005909 phosphorylation site [posttranslational modification] 568706005910 intermolecular recognition site; other site 568706005911 dimerization interface [polypeptide binding]; other site 568706005912 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 568706005913 Walker A motif; other site 568706005914 ATP binding site [chemical binding]; other site 568706005915 Walker B motif; other site 568706005916 arginine finger; other site 568706005917 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 568706005918 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 568706005919 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 568706005920 putative active site [active] 568706005921 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 568706005922 dimer interface [polypeptide binding]; other site 568706005923 phosphorylation site [posttranslational modification] 568706005924 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 568706005925 ATP binding site [chemical binding]; other site 568706005926 Mg2+ binding site [ion binding]; other site 568706005927 G-X-G motif; other site 568706005928 glutamine synthetase; Provisional; Region: glnA; PRK09469 568706005929 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 568706005930 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 568706005931 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 568706005932 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 568706005933 FeS/SAM binding site; other site 568706005934 HemN C-terminal domain; Region: HemN_C; pfam06969 568706005935 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706005936 Winged helix-turn helix; Region: HTH_29; pfam13551 568706005937 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706005938 Integrase core domain; Region: rve; pfam00665 568706005939 Integrase core domain; Region: rve_3; pfam13683 568706005940 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 568706005941 active site 568706005942 dimerization interface [polypeptide binding]; other site 568706005943 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 568706005944 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 568706005945 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 568706005946 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 568706005947 metal binding site [ion binding]; metal-binding site 568706005948 active site 568706005949 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 568706005950 dimerization interface [polypeptide binding]; other site 568706005951 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 568706005952 dimer interface [polypeptide binding]; other site 568706005953 putative CheW interface [polypeptide binding]; other site 568706005954 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706005955 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706005956 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 568706005957 putative dimerization interface [polypeptide binding]; other site 568706005958 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 568706005959 ribonuclease PH; Reviewed; Region: rph; PRK00173 568706005960 Ribonuclease PH; Region: RNase_PH_bact; cd11362 568706005961 hexamer interface [polypeptide binding]; other site 568706005962 active site 568706005963 hypothetical protein; Provisional; Region: PRK11820 568706005964 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 568706005965 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 568706005966 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 568706005967 non-specific DNA binding site [nucleotide binding]; other site 568706005968 salt bridge; other site 568706005969 sequence-specific DNA binding site [nucleotide binding]; other site 568706005971 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 568706005972 NlpC/P60 family; Region: NLPC_P60; pfam00877 568706005973 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 568706005974 classical (c) SDRs; Region: SDR_c; cd05233 568706005975 NAD(P) binding site [chemical binding]; other site 568706005976 active site 568706005977 Cytochrome c; Region: Cytochrom_C; cl11414 568706005978 Cytochrome c; Region: Cytochrom_C; cl11414 568706005979 Cytochrome c [Energy production and conversion]; Region: COG3258 568706005980 Cytochrome c; Region: Cytochrom_C; pfam00034 568706005981 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 568706005982 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 568706005983 catalytic site [active] 568706005984 G-X2-G-X-G-K; other site 568706005985 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 568706005986 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 568706005987 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568706005988 Zn2+ binding site [ion binding]; other site 568706005989 Mg2+ binding site [ion binding]; other site 568706005990 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 568706005991 synthetase active site [active] 568706005992 NTP binding site [chemical binding]; other site 568706005993 metal binding site [ion binding]; metal-binding site 568706005994 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 568706005995 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 568706005996 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 568706005997 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 568706005998 Walker A/P-loop; other site 568706005999 ATP binding site [chemical binding]; other site 568706006000 Q-loop/lid; other site 568706006001 ABC transporter signature motif; other site 568706006002 Walker B; other site 568706006003 D-loop; other site 568706006004 H-loop/switch region; other site 568706006005 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 568706006006 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706006007 dimer interface [polypeptide binding]; other site 568706006008 conserved gate region; other site 568706006009 putative PBP binding loops; other site 568706006010 ABC-ATPase subunit interface; other site 568706006011 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 568706006012 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 568706006013 substrate binding pocket [chemical binding]; other site 568706006014 membrane-bound complex binding site; other site 568706006015 hinge residues; other site 568706006016 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006017 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006018 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006019 Integrase core domain; Region: rve; pfam00665 568706006020 Integrase core domain; Region: rve_3; pfam13683 568706006021 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006022 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006023 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006024 Integrase core domain; Region: rve; pfam00665 568706006025 Integrase core domain; Region: rve_3; pfam13683 568706006026 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 568706006027 5-oxoprolinase; Region: PLN02666 568706006028 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 568706006029 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 568706006030 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 568706006031 MarR family; Region: MarR_2; cl17246 568706006033 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 568706006034 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 568706006036 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 568706006037 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 568706006038 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 568706006040 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 568706006041 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 568706006042 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 568706006043 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 568706006044 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 568706006045 PapC N-terminal domain; Region: PapC_N; pfam13954 568706006046 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 568706006047 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 568706006048 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 568706006049 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 568706006051 haemagglutination activity domain; Region: Haemagg_act; pfam05860 568706006052 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 568706006053 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 568706006054 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 568706006055 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 568706006056 active site 568706006057 phosphorylation site [posttranslational modification] 568706006058 intermolecular recognition site; other site 568706006059 dimerization interface [polypeptide binding]; other site 568706006060 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 568706006061 DNA binding residues [nucleotide binding] 568706006062 dimerization interface [polypeptide binding]; other site 568706006063 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 568706006064 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 568706006065 substrate binding pocket [chemical binding]; other site 568706006066 membrane-bound complex binding site; other site 568706006067 hinge residues; other site 568706006068 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 568706006069 substrate binding pocket [chemical binding]; other site 568706006070 membrane-bound complex binding site; other site 568706006071 hinge residues; other site 568706006072 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 568706006073 putative active site [active] 568706006074 heme pocket [chemical binding]; other site 568706006075 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 568706006076 dimer interface [polypeptide binding]; other site 568706006077 phosphorylation site [posttranslational modification] 568706006078 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 568706006079 ATP binding site [chemical binding]; other site 568706006080 Mg2+ binding site [ion binding]; other site 568706006081 G-X-G motif; other site 568706006082 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 568706006083 active site 568706006084 phosphorylation site [posttranslational modification] 568706006085 intermolecular recognition site; other site 568706006086 dimerization interface [polypeptide binding]; other site 568706006087 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 568706006088 putative binding surface; other site 568706006089 active site 568706006090 EAL domain; Region: EAL; pfam00563 568706006091 hypothetical protein; Provisional; Region: PRK05463 568706006092 amidase; Provisional; Region: PRK07056 568706006093 Amidase; Region: Amidase; cl11426 568706006096 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006097 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006098 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006099 Integrase core domain; Region: rve; pfam00665 568706006100 Integrase core domain; Region: rve_3; pfam13683 568706006102 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 568706006103 Clp amino terminal domain; Region: Clp_N; pfam02861 568706006104 Clp amino terminal domain; Region: Clp_N; pfam02861 568706006105 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 568706006106 Walker A motif; other site 568706006107 ATP binding site [chemical binding]; other site 568706006108 Walker B motif; other site 568706006109 arginine finger; other site 568706006110 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 568706006111 Walker A motif; other site 568706006112 ATP binding site [chemical binding]; other site 568706006113 Walker B motif; other site 568706006114 arginine finger; other site 568706006115 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 568706006116 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 568706006117 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 568706006118 ligand binding site [chemical binding]; other site 568706006119 flexible hinge region; other site 568706006120 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 568706006121 putative switch regulator; other site 568706006122 non-specific DNA interactions [nucleotide binding]; other site 568706006123 DNA binding site [nucleotide binding] 568706006124 sequence specific DNA binding site [nucleotide binding]; other site 568706006125 putative cAMP binding site [chemical binding]; other site 568706006126 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 568706006127 catalytic loop [active] 568706006128 iron binding site [ion binding]; other site 568706006129 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 568706006130 dimer interface [polypeptide binding]; other site 568706006131 ADP-ribose binding site [chemical binding]; other site 568706006132 active site 568706006133 nudix motif; other site 568706006134 metal binding site [ion binding]; metal-binding site 568706006135 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 568706006136 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 568706006137 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 568706006138 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 568706006139 DNA binding residues [nucleotide binding] 568706006140 SnoaL-like domain; Region: SnoaL_2; pfam12680 568706006141 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 568706006142 Uncharacterized conserved protein [Function unknown]; Region: COG2128 568706006143 NlpE N-terminal domain; Region: NlpE; pfam04170 568706006144 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 568706006145 Protein of unknown function (DUF342); Region: DUF342; pfam03961 568706006146 hypothetical protein; Validated; Region: PRK06201 568706006147 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 568706006148 aspartate aminotransferase; Provisional; Region: PRK06107 568706006149 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 568706006150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706006151 homodimer interface [polypeptide binding]; other site 568706006152 catalytic residue [active] 568706006153 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 568706006154 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 568706006155 substrate binding pocket [chemical binding]; other site 568706006156 membrane-bound complex binding site; other site 568706006157 hinge residues; other site 568706006158 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 568706006159 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 568706006160 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706006161 dimer interface [polypeptide binding]; other site 568706006162 conserved gate region; other site 568706006163 putative PBP binding loops; other site 568706006164 ABC-ATPase subunit interface; other site 568706006165 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706006166 dimer interface [polypeptide binding]; other site 568706006167 conserved gate region; other site 568706006168 putative PBP binding loops; other site 568706006169 ABC-ATPase subunit interface; other site 568706006170 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 568706006171 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 568706006172 Walker A/P-loop; other site 568706006173 ATP binding site [chemical binding]; other site 568706006174 Q-loop/lid; other site 568706006175 ABC transporter signature motif; other site 568706006176 Walker B; other site 568706006177 D-loop; other site 568706006178 H-loop/switch region; other site 568706006179 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706006180 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706006181 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 568706006182 dimerization interface [polypeptide binding]; other site 568706006183 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 568706006184 EamA-like transporter family; Region: EamA; pfam00892 568706006185 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006186 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006187 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006188 Integrase core domain; Region: rve; pfam00665 568706006189 Integrase core domain; Region: rve_3; pfam13683 568706006190 recombination protein RecR; Reviewed; Region: recR; PRK00076 568706006191 RecR protein; Region: RecR; pfam02132 568706006192 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 568706006193 putative active site [active] 568706006194 putative metal-binding site [ion binding]; other site 568706006195 tetramer interface [polypeptide binding]; other site 568706006196 hypothetical protein; Validated; Region: PRK00153 568706006197 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 568706006198 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 568706006199 Walker A motif; other site 568706006200 ATP binding site [chemical binding]; other site 568706006201 Walker B motif; other site 568706006202 arginine finger; other site 568706006203 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 568706006204 Part of AAA domain; Region: AAA_19; pfam13245 568706006205 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 568706006206 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 568706006207 probable DNA repair protein; Region: TIGR03623 568706006208 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 568706006209 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 568706006210 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 568706006211 putative substrate translocation pore; other site 568706006212 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 568706006213 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 568706006214 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 568706006215 intracellular protease, PfpI family; Region: PfpI; TIGR01382 568706006216 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 568706006217 conserved cys residue [active] 568706006218 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 568706006219 putative deacylase active site [active] 568706006220 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 568706006221 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 568706006222 active site 568706006223 DNA binding site [nucleotide binding] 568706006224 Int/Topo IB signature motif; other site 568706006225 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 568706006226 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706006227 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 568706006228 dimerization interface [polypeptide binding]; other site 568706006229 thiamine pyrophosphate protein; Validated; Region: PRK08199 568706006230 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 568706006231 PYR/PP interface [polypeptide binding]; other site 568706006232 dimer interface [polypeptide binding]; other site 568706006233 TPP binding site [chemical binding]; other site 568706006234 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 568706006235 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 568706006236 TPP-binding site [chemical binding]; other site 568706006237 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 568706006238 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 568706006239 FAD binding site [chemical binding]; other site 568706006240 substrate binding pocket [chemical binding]; other site 568706006241 catalytic base [active] 568706006242 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 568706006243 putative active site [active] 568706006244 putative catalytic site [active] 568706006245 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 568706006246 PYR/PP interface [polypeptide binding]; other site 568706006247 dimer interface [polypeptide binding]; other site 568706006248 TPP binding site [chemical binding]; other site 568706006249 hypothetical protein; Validated; Region: PRK07586 568706006250 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 568706006251 TPP-binding site [chemical binding]; other site 568706006252 dimer interface [polypeptide binding]; other site 568706006253 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 568706006254 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 568706006255 Walker A/P-loop; other site 568706006256 ATP binding site [chemical binding]; other site 568706006257 Q-loop/lid; other site 568706006258 ABC transporter signature motif; other site 568706006259 Walker B; other site 568706006260 D-loop; other site 568706006261 H-loop/switch region; other site 568706006262 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 568706006263 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706006264 dimer interface [polypeptide binding]; other site 568706006265 conserved gate region; other site 568706006266 putative PBP binding loops; other site 568706006267 ABC-ATPase subunit interface; other site 568706006268 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 568706006269 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 568706006270 substrate binding pocket [chemical binding]; other site 568706006271 membrane-bound complex binding site; other site 568706006272 hinge residues; other site 568706006273 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 568706006274 agmatinase; Region: agmatinase; TIGR01230 568706006275 oligomer interface [polypeptide binding]; other site 568706006276 putative active site [active] 568706006277 Mn binding site [ion binding]; other site 568706006278 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706006279 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 568706006280 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706006281 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 568706006282 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 568706006283 substrate binding pocket [chemical binding]; other site 568706006284 membrane-bound complex binding site; other site 568706006285 hinge residues; other site 568706006286 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 568706006287 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 568706006288 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 568706006289 ATP-grasp domain; Region: ATP-grasp; pfam02222 568706006290 AIR carboxylase; Region: AIRC; pfam00731 568706006291 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 568706006292 toxin interface [polypeptide binding]; other site 568706006293 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 568706006294 Zn binding site [ion binding]; other site 568706006295 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 568706006296 non-specific DNA binding site [nucleotide binding]; other site 568706006297 salt bridge; other site 568706006298 sequence-specific DNA binding site [nucleotide binding]; other site 568706006299 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 568706006300 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 568706006301 ATP binding site [chemical binding]; other site 568706006302 active site 568706006303 substrate binding site [chemical binding]; other site 568706006304 Uncharacterized conserved protein [Function unknown]; Region: COG3791 568706006305 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 568706006306 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 568706006307 intersubunit interface [polypeptide binding]; other site 568706006308 active site 568706006309 zinc binding site [ion binding]; other site 568706006310 Na+ binding site [ion binding]; other site 568706006311 MOSC domain; Region: MOSC; pfam03473 568706006312 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 568706006313 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 568706006314 DNA binding residues [nucleotide binding] 568706006315 dimerization interface [polypeptide binding]; other site 568706006316 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 568706006317 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 568706006318 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 568706006319 formate dehydrogenase; Provisional; Region: PRK07574 568706006320 NAD-dependent Formate Dehydrogenase (FDH); Region: FDH; cd05302 568706006321 dimerization interface [polypeptide binding]; other site 568706006322 ligand binding site [chemical binding]; other site 568706006323 NAD binding site [chemical binding]; other site 568706006324 catalytic site [active] 568706006325 Uncharacterized conserved protein [Function unknown]; Region: COG3791 568706006326 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006327 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006328 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006329 Integrase core domain; Region: rve; pfam00665 568706006330 Integrase core domain; Region: rve_3; pfam13683 568706006332 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 568706006333 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 568706006335 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 568706006336 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 568706006337 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 568706006338 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 568706006340 Predicted small secreted protein [Function unknown]; Region: COG5510 568706006341 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 568706006342 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 568706006343 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 568706006344 dimer interface [polypeptide binding]; other site 568706006345 substrate binding site [chemical binding]; other site 568706006346 metal binding sites [ion binding]; metal-binding site 568706006347 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 568706006348 HemY protein N-terminus; Region: HemY_N; pfam07219 568706006349 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 568706006350 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 568706006351 active site 568706006352 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 568706006353 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 568706006354 domain interfaces; other site 568706006355 active site 568706006356 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 568706006357 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 568706006358 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 568706006359 CoA binding domain; Region: CoA_binding; smart00881 568706006360 CoA-ligase; Region: Ligase_CoA; pfam00549 568706006361 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 568706006362 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 568706006363 CoA-ligase; Region: Ligase_CoA; pfam00549 568706006364 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 568706006365 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 568706006366 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 568706006367 THF binding site; other site 568706006368 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 568706006369 substrate binding site [chemical binding]; other site 568706006370 THF binding site; other site 568706006371 zinc-binding site [ion binding]; other site 568706006372 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 568706006373 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706006374 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 568706006375 putative dimerization interface [polypeptide binding]; other site 568706006376 RecX family; Region: RecX; cl00936 568706006377 recombinase A; Provisional; Region: recA; PRK09354 568706006378 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 568706006379 hexamer interface [polypeptide binding]; other site 568706006380 Walker A motif; other site 568706006381 ATP binding site [chemical binding]; other site 568706006382 Walker B motif; other site 568706006383 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568706006384 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 568706006385 active site 568706006386 phosphorylation site [posttranslational modification] 568706006387 intermolecular recognition site; other site 568706006388 dimerization interface [polypeptide binding]; other site 568706006389 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 568706006390 DNA binding site [nucleotide binding] 568706006391 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 568706006392 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 568706006393 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 568706006394 dimer interface [polypeptide binding]; other site 568706006395 phosphorylation site [posttranslational modification] 568706006396 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 568706006397 ATP binding site [chemical binding]; other site 568706006398 G-X-G motif; other site 568706006399 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 568706006400 putative substrate translocation pore; other site 568706006401 enoyl-CoA hydratase; Provisional; Region: PRK06144 568706006402 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 568706006403 substrate binding site [chemical binding]; other site 568706006404 oxyanion hole (OAH) forming residues; other site 568706006405 trimer interface [polypeptide binding]; other site 568706006406 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 568706006407 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706006408 Walker A/P-loop; other site 568706006409 ATP binding site [chemical binding]; other site 568706006410 Q-loop/lid; other site 568706006411 ABC transporter signature motif; other site 568706006412 Walker B; other site 568706006413 D-loop; other site 568706006414 H-loop/switch region; other site 568706006415 TOBE domain; Region: TOBE_2; pfam08402 568706006416 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 568706006417 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706006418 dimer interface [polypeptide binding]; other site 568706006419 conserved gate region; other site 568706006420 putative PBP binding loops; other site 568706006421 ABC-ATPase subunit interface; other site 568706006422 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706006423 dimer interface [polypeptide binding]; other site 568706006424 conserved gate region; other site 568706006425 putative PBP binding loops; other site 568706006426 ABC-ATPase subunit interface; other site 568706006427 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 568706006428 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 568706006429 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 568706006430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706006431 NAD(P) binding site [chemical binding]; other site 568706006432 active site 568706006433 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 568706006434 active site 2 [active] 568706006435 active site 1 [active] 568706006436 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 568706006437 DUF35 OB-fold domain; Region: DUF35; pfam01796 568706006438 thiolase; Provisional; Region: PRK06158 568706006439 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 568706006440 active site 568706006441 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 568706006442 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706006443 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 568706006444 dimerization interface [polypeptide binding]; other site 568706006445 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568706006446 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568706006447 recombination associated protein; Reviewed; Region: rdgC; PRK00321 568706006448 aspartate carbamoyltransferase; Provisional; Region: PRK11891 568706006449 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 568706006450 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 568706006452 Endonuclease I; Region: Endonuclease_1; pfam04231 568706006453 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006454 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006455 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006456 Integrase core domain; Region: rve; pfam00665 568706006457 Integrase core domain; Region: rve_3; pfam13683 568706006458 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 568706006459 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 568706006460 AsnC family; Region: AsnC_trans_reg; pfam01037 568706006462 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006463 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006464 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006465 Integrase core domain; Region: rve; pfam00665 568706006466 Integrase core domain; Region: rve_3; pfam13683 568706006467 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 568706006468 trimer interface [polypeptide binding]; other site 568706006469 active site 568706006472 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 568706006473 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 568706006474 putative active site pocket [active] 568706006475 metal binding site [ion binding]; metal-binding site 568706006476 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706006478 3-isopropylmalate dehydratase, small subunit; Region: leuD; TIGR00171 568706006479 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 568706006480 substrate binding site [chemical binding]; other site 568706006481 Transcriptional regulators [Transcription]; Region: PurR; COG1609 568706006482 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 568706006483 DNA binding site [nucleotide binding] 568706006484 domain linker motif; other site 568706006485 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 568706006486 dimerization interface [polypeptide binding]; other site 568706006487 ligand binding site [chemical binding]; other site 568706006488 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706006489 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568706006490 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568706006491 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 568706006492 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 568706006493 active site 568706006494 citrylCoA binding site [chemical binding]; other site 568706006495 oxalacetate binding site [chemical binding]; other site 568706006496 coenzyme A binding site [chemical binding]; other site 568706006497 catalytic triad [active] 568706006498 similar to putative exported protein (pseudogene) 568706006499 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 568706006500 CoA binding domain; Region: CoA_binding_2; pfam13380 568706006501 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 568706006502 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 568706006503 Transcriptional regulators [Transcription]; Region: GntR; COG1802 568706006504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706006505 DNA-binding site [nucleotide binding]; DNA binding site 568706006506 FCD domain; Region: FCD; pfam07729 568706006507 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 568706006508 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 568706006509 Predicted flavoprotein [General function prediction only]; Region: COG0431 568706006510 LysR family transcriptional regulator; Provisional; Region: PRK14997 568706006511 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706006512 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 568706006513 putative effector binding pocket; other site 568706006514 putative dimerization interface [polypeptide binding]; other site 568706006515 RecB family nuclease, putative, TM0106 family; Region: TIGR03491 568706006516 RNase_H superfamily; Region: RNase_H_2; pfam13482 568706006517 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 568706006518 AAA domain; Region: AAA_12; pfam13087 568706006519 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 568706006520 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 568706006521 Autotransporter beta-domain; Region: Autotransporter; smart00869 568706006523 Predicted transcriptional regulators [Transcription]; Region: COG1695 568706006524 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 568706006526 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 568706006527 putative catalytic site [active] 568706006528 putative metal binding site [ion binding]; other site 568706006529 putative phosphate binding site [ion binding]; other site 568706006530 cardiolipin synthase 2; Provisional; Region: PRK11263 568706006531 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 568706006532 putative active site [active] 568706006533 catalytic site [active] 568706006534 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 568706006535 putative active site [active] 568706006536 catalytic site [active] 568706006537 Predicted integral membrane protein [Function unknown]; Region: COG0392 568706006538 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 568706006539 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 568706006540 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 568706006542 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006543 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006544 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006545 Integrase core domain; Region: rve; pfam00665 568706006546 Integrase core domain; Region: rve_3; pfam13683 568706006548 LrgA family; Region: LrgA; pfam03788 568706006549 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 568706006550 AAA domain; Region: AAA_26; pfam13500 568706006551 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 568706006552 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 568706006553 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 568706006554 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 568706006555 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568706006556 catalytic residue [active] 568706006557 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 568706006558 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 568706006559 inhibitor-cofactor binding pocket; inhibition site 568706006560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706006561 catalytic residue [active] 568706006562 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006563 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006564 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006565 Integrase core domain; Region: rve; pfam00665 568706006566 Integrase core domain; Region: rve_3; pfam13683 568706006568 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 568706006570 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 568706006571 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 568706006572 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 568706006574 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 568706006575 4Fe-4S binding domain; Region: Fer4_5; pfam12801 568706006576 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 568706006577 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 568706006578 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 568706006579 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568706006580 Coenzyme A binding pocket [chemical binding]; other site 568706006581 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 568706006582 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 568706006583 Walker A/P-loop; other site 568706006584 ATP binding site [chemical binding]; other site 568706006585 Q-loop/lid; other site 568706006586 ABC transporter signature motif; other site 568706006587 Walker B; other site 568706006588 D-loop; other site 568706006589 H-loop/switch region; other site 568706006590 ABC-2 type transporter; Region: ABC2_membrane; cl17235 568706006591 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 568706006592 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 568706006593 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006594 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006595 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006596 Integrase core domain; Region: rve; pfam00665 568706006597 Integrase core domain; Region: rve_3; pfam13683 568706006598 isocitrate lyase; Provisional; Region: PRK15063 568706006599 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 568706006600 tetramer interface [polypeptide binding]; other site 568706006601 active site 568706006602 Mg2+/Mn2+ binding site [ion binding]; other site 568706006603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 568706006604 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 568706006605 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 568706006607 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 568706006608 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 568706006609 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 568706006610 GIY-YIG motif/motif A; other site 568706006611 active site 568706006612 catalytic site [active] 568706006613 putative DNA binding site [nucleotide binding]; other site 568706006614 metal binding site [ion binding]; metal-binding site 568706006615 UvrB/uvrC motif; Region: UVR; pfam02151 568706006616 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 568706006617 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 568706006618 beta-hexosaminidase; Provisional; Region: PRK05337 568706006619 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 568706006620 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 568706006621 active site 568706006622 hydrophilic channel; other site 568706006623 dimerization interface [polypeptide binding]; other site 568706006624 catalytic residues [active] 568706006625 active site lid [active] 568706006627 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 568706006628 Protein export membrane protein; Region: SecD_SecF; cl14618 568706006629 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 568706006630 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 568706006631 HlyD family secretion protein; Region: HlyD_3; pfam13437 568706006632 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568706006633 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 568706006634 DNA binding site [nucleotide binding] 568706006635 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 568706006636 Patatin phospholipase; Region: DUF3734; pfam12536 568706006637 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 568706006638 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 568706006639 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 568706006640 molybdenum-pterin binding domain; Region: Mop; TIGR00638 568706006641 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 568706006642 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 568706006643 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706006644 Walker A/P-loop; other site 568706006645 ATP binding site [chemical binding]; other site 568706006646 Q-loop/lid; other site 568706006647 ABC transporter signature motif; other site 568706006648 Walker B; other site 568706006649 D-loop; other site 568706006650 H-loop/switch region; other site 568706006651 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 568706006652 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 568706006653 TM-ABC transporter signature motif; other site 568706006654 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 568706006655 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 568706006656 zinc binding site [ion binding]; other site 568706006657 putative ligand binding site [chemical binding]; other site 568706006659 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706006660 malonyl-CoA synthase; Validated; Region: PRK07514 568706006661 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 568706006662 acyl-activating enzyme (AAE) consensus motif; other site 568706006663 active site 568706006664 AMP binding site [chemical binding]; other site 568706006665 CoA binding site [chemical binding]; other site 568706006667 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 568706006668 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 568706006669 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706006670 DNA-binding site [nucleotide binding]; DNA binding site 568706006671 FCD domain; Region: FCD; pfam07729 568706006672 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 568706006673 beta-ketothiolase; Provisional; Region: PRK09051 568706006674 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 568706006675 dimer interface [polypeptide binding]; other site 568706006676 active site 568706006677 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 568706006678 active site 1 [active] 568706006679 dimer interface [polypeptide binding]; other site 568706006680 hexamer interface [polypeptide binding]; other site 568706006681 active site 2 [active] 568706006682 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 568706006683 dimer interface [polypeptide binding]; other site 568706006684 hexamer interface [polypeptide binding]; other site 568706006685 active site 2 [active] 568706006686 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 568706006687 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 568706006688 Walker A/P-loop; other site 568706006689 ATP binding site [chemical binding]; other site 568706006690 Q-loop/lid; other site 568706006691 ABC transporter signature motif; other site 568706006692 Walker B; other site 568706006693 D-loop; other site 568706006694 H-loop/switch region; other site 568706006695 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 568706006696 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706006697 dimer interface [polypeptide binding]; other site 568706006698 conserved gate region; other site 568706006699 putative PBP binding loops; other site 568706006700 ABC-ATPase subunit interface; other site 568706006701 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 568706006702 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 568706006703 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006704 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006705 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006706 Integrase core domain; Region: rve; pfam00665 568706006707 Integrase core domain; Region: rve_3; pfam13683 568706006708 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 568706006709 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 568706006710 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706006711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706006712 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 568706006713 dimerization interface [polypeptide binding]; other site 568706006714 substrate binding pocket [chemical binding]; other site 568706006715 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706006717 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 568706006718 DUF35 OB-fold domain; Region: DUF35; pfam01796 568706006719 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 568706006720 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 568706006721 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 568706006722 acyl-activating enzyme (AAE) consensus motif; other site 568706006723 putative AMP binding site [chemical binding]; other site 568706006724 putative active site [active] 568706006725 putative CoA binding site [chemical binding]; other site 568706006726 Restriction endonuclease; Region: Mrr_cat; pfam04471 568706006727 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706006728 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706006729 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 568706006730 dimerization interface [polypeptide binding]; other site 568706006731 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706006732 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 568706006733 active site 568706006734 iron coordination sites [ion binding]; other site 568706006735 substrate binding pocket [chemical binding]; other site 568706006736 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 568706006737 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 568706006738 Predicted transcriptional regulators [Transcription]; Region: COG1378 568706006739 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 568706006740 dimerization interface [polypeptide binding]; other site 568706006741 putative Zn2+ binding site [ion binding]; other site 568706006742 putative DNA binding site [nucleotide binding]; other site 568706006743 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 568706006744 C-terminal domain interface [polypeptide binding]; other site 568706006745 sugar binding site [chemical binding]; other site 568706006746 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 568706006747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 568706006748 tricarballylate utilization protein B; Provisional; Region: PRK15033 568706006749 tricarballylate dehydrogenase; Validated; Region: PRK08274 568706006750 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 568706006751 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 568706006752 NAD(P) binding site [chemical binding]; other site 568706006753 catalytic residues [active] 568706006754 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 568706006756 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 568706006757 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706006758 dimer interface [polypeptide binding]; other site 568706006759 conserved gate region; other site 568706006760 putative PBP binding loops; other site 568706006761 ABC-ATPase subunit interface; other site 568706006762 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 568706006763 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706006764 dimer interface [polypeptide binding]; other site 568706006765 conserved gate region; other site 568706006766 putative PBP binding loops; other site 568706006767 ABC-ATPase subunit interface; other site 568706006768 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 568706006769 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 568706006770 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006771 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006772 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006773 Integrase core domain; Region: rve; pfam00665 568706006774 Integrase core domain; Region: rve_3; pfam13683 568706006775 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 568706006776 active site 568706006777 DNA polymerase IV; Validated; Region: PRK02406 568706006778 DNA binding site [nucleotide binding] 568706006779 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 568706006780 CoenzymeA binding site [chemical binding]; other site 568706006781 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 568706006782 subunit interaction site [polypeptide binding]; other site 568706006783 PHB binding site; other site 568706006784 similar to putative lipoprotein (Pseudogene) 568706006785 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 568706006786 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 568706006787 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 568706006788 Transglycosylase; Region: Transgly; pfam00912 568706006789 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 568706006792 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 568706006793 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 568706006794 active site 568706006795 catalytic tetrad [active] 568706006796 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 568706006797 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 568706006798 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 568706006799 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 568706006800 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 568706006801 active site 568706006802 metal binding site [ion binding]; metal-binding site 568706006803 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006804 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006805 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006806 Integrase core domain; Region: rve; pfam00665 568706006807 Integrase core domain; Region: rve_3; pfam13683 568706006808 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 568706006809 Transglycosylase SLT domain; Region: SLT_2; pfam13406 568706006810 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 568706006811 N-acetyl-D-glucosamine binding site [chemical binding]; other site 568706006812 catalytic residue [active] 568706006813 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 568706006814 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 568706006815 dinuclear metal binding motif [ion binding]; other site 568706006816 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 568706006817 Protein of unknown function, DUF482; Region: DUF482; pfam04339 568706006818 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 568706006820 cyanophycin synthetase; Region: cya_phycin_syn; TIGR02068 568706006821 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 568706006822 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568706006823 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 568706006824 cyanophycin synthetase; Region: cya_phycin_syn; TIGR02068 568706006825 ATP-grasp domain; Region: ATP-grasp_4; cl17255 568706006826 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568706006827 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 568706006828 CsbD-like; Region: CsbD; cl17424 568706006829 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 568706006830 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006831 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006832 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006833 Integrase core domain; Region: rve; pfam00665 568706006834 Integrase core domain; Region: rve_3; pfam13683 568706006835 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706006836 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706006837 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 568706006838 dimerization interface [polypeptide binding]; other site 568706006839 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 568706006840 EamA-like transporter family; Region: EamA; pfam00892 568706006841 EamA-like transporter family; Region: EamA; cl17759 568706006842 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 568706006843 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 568706006844 Walker A/P-loop; other site 568706006845 ATP binding site [chemical binding]; other site 568706006846 Q-loop/lid; other site 568706006847 ABC transporter signature motif; other site 568706006848 Walker B; other site 568706006849 D-loop; other site 568706006850 H-loop/switch region; other site 568706006851 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 568706006852 active site 568706006853 catalytic triad [active] 568706006854 oxyanion hole [active] 568706006855 switch loop; other site 568706006856 SurA N-terminal domain; Region: SurA_N_3; cl07813 568706006857 periplasmic folding chaperone; Provisional; Region: PRK10788 568706006858 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 568706006859 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 568706006860 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 568706006861 putative active site [active] 568706006862 catalytic site [active] 568706006863 putative metal binding site [ion binding]; other site 568706006864 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 568706006865 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 568706006866 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 568706006867 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568706006868 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 568706006869 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 568706006870 catalytic triad [active] 568706006871 dimer interface [polypeptide binding]; other site 568706006872 Glutaredoxin-family domain; Region: GlrX-dom; TIGR02190 568706006873 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 568706006874 metal-binding site [ion binding] 568706006875 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 568706006876 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 568706006877 DNA binding residues [nucleotide binding] 568706006878 dimer interface [polypeptide binding]; other site 568706006879 copper binding site [ion binding]; other site 568706006880 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 568706006881 TRAM domain; Region: TRAM; cl01282 568706006882 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 568706006883 S-adenosylmethionine binding site [chemical binding]; other site 568706006884 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 568706006885 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 568706006886 active site 568706006887 catalytic site [active] 568706006888 substrate binding site [chemical binding]; other site 568706006889 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 568706006890 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 568706006891 Peptidase family M23; Region: Peptidase_M23; pfam01551 568706006892 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 568706006893 Methyltransferase domain; Region: Methyltransf_18; pfam12847 568706006894 S-adenosylmethionine binding site [chemical binding]; other site 568706006895 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 568706006896 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 568706006897 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706006898 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706006899 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706006900 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006901 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006902 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006903 Integrase core domain; Region: rve; pfam00665 568706006904 Integrase core domain; Region: rve_3; pfam13683 568706006905 UGMP family protein; Validated; Region: PRK09604 568706006906 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 568706006908 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 568706006909 catalytic residues [active] 568706006910 Uncharacterized conserved protein [Function unknown]; Region: COG1739 568706006911 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 568706006912 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 568706006913 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006914 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006915 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006916 Integrase core domain; Region: rve; pfam00665 568706006917 Integrase core domain; Region: rve_3; pfam13683 568706006918 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 568706006919 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 568706006920 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706006921 dimer interface [polypeptide binding]; other site 568706006922 conserved gate region; other site 568706006923 putative PBP binding loops; other site 568706006924 ABC-ATPase subunit interface; other site 568706006926 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 568706006927 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 568706006928 Walker A/P-loop; other site 568706006929 ATP binding site [chemical binding]; other site 568706006930 Q-loop/lid; other site 568706006931 ABC transporter signature motif; other site 568706006932 Walker B; other site 568706006933 D-loop; other site 568706006934 H-loop/switch region; other site 568706006935 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 568706006936 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 568706006937 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 568706006938 ABC transporter; Region: ABC_tran_2; pfam12848 568706006939 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 568706006940 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 568706006941 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 568706006942 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 568706006943 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 568706006944 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 568706006945 enoyl-CoA hydratase; Provisional; Region: PRK05995 568706006946 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 568706006947 substrate binding site [chemical binding]; other site 568706006948 oxyanion hole (OAH) forming residues; other site 568706006949 trimer interface [polypeptide binding]; other site 568706006950 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 568706006951 dimer interface [polypeptide binding]; other site 568706006952 catalytic triad [active] 568706006953 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 568706006954 nucleoside/Zn binding site; other site 568706006955 dimer interface [polypeptide binding]; other site 568706006956 catalytic motif [active] 568706006957 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006958 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006959 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006960 Integrase core domain; Region: rve; pfam00665 568706006961 Integrase core domain; Region: rve_3; pfam13683 568706006962 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006963 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006964 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006965 Integrase core domain; Region: rve; pfam00665 568706006966 Integrase core domain; Region: rve_3; pfam13683 568706006967 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 568706006968 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 568706006969 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 568706006970 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 568706006971 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 568706006972 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 568706006973 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 568706006974 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 568706006975 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 568706006976 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 568706006978 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706006979 Winged helix-turn helix; Region: HTH_29; pfam13551 568706006980 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706006981 Integrase core domain; Region: rve; pfam00665 568706006982 Integrase core domain; Region: rve_3; pfam13683 568706006983 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706006984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706006985 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 568706006986 dimerization interface [polypeptide binding]; other site 568706006987 dihydropteridine reductase (DHPR), classical (c) SDRs; Region: DHPR_SDR_c_like; cd05334 568706006988 NAD binding site [chemical binding]; other site 568706006989 homodimer interface [polypeptide binding]; other site 568706006990 active site 568706006991 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706006993 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 568706006994 putative DNA binding site [nucleotide binding]; other site 568706006995 putative Zn2+ binding site [ion binding]; other site 568706006996 Major Facilitator Superfamily; Region: MFS_1; pfam07690 568706006998 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 568706006999 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 568706007001 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007002 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007003 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007004 Integrase core domain; Region: rve; pfam00665 568706007005 Integrase core domain; Region: rve_3; pfam13683 568706007006 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706007007 salicylate hydroxylase; Provisional; Region: PRK08163 568706007008 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 568706007009 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 568706007010 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 568706007011 hydroxyglutarate oxidase; Provisional; Region: PRK11728 568706007012 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 568706007013 active site 568706007014 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 568706007015 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 568706007016 putative active site [active] 568706007017 metal binding site [ion binding]; metal-binding site 568706007018 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 568706007019 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 568706007020 dimer interface [polypeptide binding]; other site 568706007021 active site 568706007022 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 568706007023 substrate binding site [chemical binding]; other site 568706007024 oxyanion hole (OAH) forming residues; other site 568706007025 trimer interface [polypeptide binding]; other site 568706007026 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 568706007027 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 568706007028 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 568706007029 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 568706007030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 568706007031 enoyl-CoA hydratase; Provisional; Region: PRK09245 568706007032 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 568706007033 substrate binding site [chemical binding]; other site 568706007034 oxyanion hole (OAH) forming residues; other site 568706007035 trimer interface [polypeptide binding]; other site 568706007038 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706007040 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 568706007041 classical (c) SDRs; Region: SDR_c; cd05233 568706007042 NAD(P) binding site [chemical binding]; other site 568706007043 active site 568706007044 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706007045 DUF35 OB-fold domain; Region: DUF35; pfam01796 568706007047 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007048 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007049 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007050 Integrase core domain; Region: rve; pfam00665 568706007051 Integrase core domain; Region: rve_3; pfam13683 568706007053 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706007054 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 568706007055 putative DNA binding site [nucleotide binding]; other site 568706007056 putative Zn2+ binding site [ion binding]; other site 568706007057 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706007058 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568706007059 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568706007060 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 568706007061 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 568706007062 Walker A/P-loop; other site 568706007063 ATP binding site [chemical binding]; other site 568706007064 Q-loop/lid; other site 568706007065 ABC transporter signature motif; other site 568706007066 Walker B; other site 568706007067 D-loop; other site 568706007068 H-loop/switch region; other site 568706007069 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007070 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007071 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007072 Integrase core domain; Region: rve; pfam00665 568706007073 Integrase core domain; Region: rve_3; pfam13683 568706007075 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 568706007076 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 568706007077 putative substrate translocation pore; other site 568706007078 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 568706007079 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 568706007080 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 568706007081 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 568706007082 Sulfate transporter family; Region: Sulfate_transp; pfam00916 568706007083 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 568706007084 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007085 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007086 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007087 Integrase core domain; Region: rve; pfam00665 568706007088 Integrase core domain; Region: rve_3; pfam13683 568706007089 bacterial (prokaryotic) histone like domain; Region: BHL; smart00411 568706007090 IHF dimer interface [polypeptide binding]; other site 568706007091 IHF - DNA interface [nucleotide binding]; other site 568706007092 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 568706007093 MarR family; Region: MarR_2; cl17246 568706007094 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 568706007095 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 568706007096 putative substrate translocation pore; other site 568706007097 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 568706007098 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 568706007099 HIGH motif; other site 568706007100 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 568706007101 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 568706007102 active site 568706007103 KMSKS motif; other site 568706007104 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 568706007105 tRNA binding surface [nucleotide binding]; other site 568706007106 Lipopolysaccharide-assembly; Region: LptE; pfam04390 568706007107 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 568706007108 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 568706007109 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 568706007110 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 568706007111 putative catalytic cysteine [active] 568706007112 amidase; Provisional; Region: PRK07487 568706007113 Amidase; Region: Amidase; cl11426 568706007114 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 568706007115 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 568706007116 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 568706007117 Predicted acetyltransferase [General function prediction only]; Region: COG2388 568706007118 hypothetical protein; Provisional; Region: PRK01842 568706007119 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706007120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706007121 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706007122 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 568706007123 PAS fold; Region: PAS_3; pfam08447 568706007124 putative active site [active] 568706007125 heme pocket [chemical binding]; other site 568706007126 HAMP domain; Region: HAMP; pfam00672 568706007127 dimerization interface [polypeptide binding]; other site 568706007128 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 568706007129 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 568706007130 dimer interface [polypeptide binding]; other site 568706007131 putative CheW interface [polypeptide binding]; other site 568706007132 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 568706007133 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 568706007134 dimer interface [polypeptide binding]; other site 568706007135 ligand binding site [chemical binding]; other site 568706007136 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 568706007137 dimerization interface [polypeptide binding]; other site 568706007138 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 568706007139 dimer interface [polypeptide binding]; other site 568706007140 putative CheW interface [polypeptide binding]; other site 568706007141 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 568706007142 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 568706007143 dimer interface [polypeptide binding]; other site 568706007144 ligand binding site [chemical binding]; other site 568706007145 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 568706007146 dimerization interface [polypeptide binding]; other site 568706007147 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 568706007148 dimer interface [polypeptide binding]; other site 568706007149 putative CheW interface [polypeptide binding]; other site 568706007150 flagellar hook-associated protein FlgL; Provisional; Region: flgL; PRK12718 568706007151 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 568706007152 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 568706007153 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 568706007154 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12713 568706007155 Rod binding protein; Region: Rod-binding; cl01626 568706007156 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 568706007157 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 568706007158 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 568706007159 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12700 568706007160 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 568706007161 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 568706007162 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 568706007163 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 568706007164 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 568706007165 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 568706007166 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 568706007167 flagellar hook protein FlgE; Provisional; Region: flgE; PRK12637 568706007168 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 568706007169 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 568706007170 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 568706007171 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK12633 568706007172 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 568706007173 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 568706007174 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 568706007175 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 568706007176 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 568706007177 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 568706007178 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 568706007179 SAF-like; Region: SAF_2; pfam13144 568706007180 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 568706007181 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 568706007182 FlgN protein; Region: FlgN; pfam05130 568706007185 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 568706007186 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 568706007187 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706007188 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706007189 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706007190 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 568706007191 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 568706007192 substrate binding pocket [chemical binding]; other site 568706007193 membrane-bound complex binding site; other site 568706007194 hinge residues; other site 568706007195 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 568706007196 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706007197 dimer interface [polypeptide binding]; other site 568706007198 conserved gate region; other site 568706007199 putative PBP binding loops; other site 568706007200 ABC-ATPase subunit interface; other site 568706007201 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 568706007202 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706007203 Walker A/P-loop; other site 568706007204 ATP binding site [chemical binding]; other site 568706007205 Q-loop/lid; other site 568706007206 ABC transporter signature motif; other site 568706007207 Walker B; other site 568706007208 D-loop; other site 568706007209 H-loop/switch region; other site 568706007210 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007211 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007212 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 568706007213 Integrase core domain; Region: rve; pfam00665 568706007214 Integrase core domain; Region: rve_3; pfam13683 568706007215 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 568706007216 Sulfatase; Region: Sulfatase; cl17466 568706007217 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 568706007218 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 568706007219 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 568706007220 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 568706007221 putative metal binding site; other site 568706007222 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 568706007223 putative active site [active] 568706007224 putative metal binding site [ion binding]; other site 568706007225 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 568706007226 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 568706007227 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 568706007228 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 568706007229 putative active site [active] 568706007230 putative PHP Thumb interface [polypeptide binding]; other site 568706007231 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 568706007232 generic binding surface I; other site 568706007233 generic binding surface II; other site 568706007234 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 568706007235 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 568706007236 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 568706007237 ATP binding site [chemical binding]; other site 568706007238 putative Mg++ binding site [ion binding]; other site 568706007239 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 568706007240 nucleotide binding region [chemical binding]; other site 568706007241 ATP-binding site [chemical binding]; other site 568706007242 Helicase associated domain (HA2); Region: HA2; pfam04408 568706007243 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 568706007244 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 568706007245 N-acetylglutamate synthase; Validated; Region: PRK05279 568706007246 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 568706007247 putative feedback inhibition sensing region; other site 568706007248 putative nucleotide binding site [chemical binding]; other site 568706007249 putative substrate binding site [chemical binding]; other site 568706007250 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568706007251 Coenzyme A binding pocket [chemical binding]; other site 568706007252 oxidative damage protection protein; Provisional; Region: PRK05408 568706007253 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 568706007254 Phosphoesterase family; Region: Phosphoesterase; pfam04185 568706007255 Domain of unknown function (DUF756); Region: DUF756; pfam05506 568706007256 transcriptional regulator PhoU; Provisional; Region: PRK11115 568706007257 PhoU domain; Region: PhoU; pfam01895 568706007258 PhoU domain; Region: PhoU; pfam01895 568706007259 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 568706007260 tetramer (dimer of dimers) interface [polypeptide binding]; other site 568706007261 active site 568706007262 dimer interface [polypeptide binding]; other site 568706007263 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 568706007264 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 568706007265 active site 568706007266 RmuC family; Region: RmuC; pfam02646 568706007267 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; pfam10707 568706007268 3-methyladenine DNA glycosylase; Reviewed; Region: PRK00802 568706007269 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 568706007270 ArsC family; Region: ArsC; pfam03960 568706007271 putative catalytic residues [active] 568706007272 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 568706007273 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706007274 dimer interface [polypeptide binding]; other site 568706007275 conserved gate region; other site 568706007276 putative PBP binding loops; other site 568706007277 ABC-ATPase subunit interface; other site 568706007278 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706007279 dimer interface [polypeptide binding]; other site 568706007280 conserved gate region; other site 568706007281 putative PBP binding loops; other site 568706007282 ABC-ATPase subunit interface; other site 568706007283 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 568706007284 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706007285 Walker A/P-loop; other site 568706007286 ATP binding site [chemical binding]; other site 568706007287 Q-loop/lid; other site 568706007288 ABC transporter signature motif; other site 568706007289 Walker B; other site 568706007290 D-loop; other site 568706007291 H-loop/switch region; other site 568706007292 TOBE domain; Region: TOBE_2; pfam08402 568706007293 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 568706007294 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 568706007295 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 568706007296 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 568706007297 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 568706007298 apolar tunnel; other site 568706007299 heme binding site [chemical binding]; other site 568706007300 dimerization interface [polypeptide binding]; other site 568706007301 FtsX-like permease family; Region: FtsX; pfam02687 568706007302 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 568706007303 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 568706007304 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 568706007306 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007307 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007308 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007309 Integrase core domain; Region: rve; pfam00665 568706007310 Integrase core domain; Region: rve_3; pfam13683 568706007311 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 568706007312 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 568706007313 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 568706007314 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 568706007315 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 568706007316 active site 568706007317 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 568706007318 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 568706007319 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 568706007320 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 568706007321 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 568706007322 Competence protein; Region: Competence; pfam03772 568706007323 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 568706007324 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 568706007326 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 568706007327 Autotransporter beta-domain; Region: Autotransporter; pfam03797 568706007328 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 568706007329 active site 568706007330 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 568706007331 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 568706007332 Walker A/P-loop; other site 568706007333 ATP binding site [chemical binding]; other site 568706007334 Q-loop/lid; other site 568706007335 ABC transporter signature motif; other site 568706007336 Walker B; other site 568706007337 D-loop; other site 568706007338 H-loop/switch region; other site 568706007339 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 568706007340 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 568706007341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 568706007342 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 568706007343 DHH family; Region: DHH; pfam01368 568706007344 DHHA1 domain; Region: DHHA1; pfam02272 568706007345 peptide chain release factor 2; Validated; Region: prfB; PRK00578 568706007346 This domain is found in peptide chain release factors; Region: PCRF; smart00937 568706007347 RF-1 domain; Region: RF-1; pfam00472 568706007348 short chain dehydrogenase; Provisional; Region: PRK07023 568706007349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706007350 NAD(P) binding site [chemical binding]; other site 568706007351 active site 568706007352 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 568706007353 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 568706007354 dimer interface [polypeptide binding]; other site 568706007355 putative anticodon binding site; other site 568706007356 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 568706007357 motif 1; other site 568706007358 active site 568706007359 motif 2; other site 568706007360 motif 3; other site 568706007361 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007362 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007363 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007364 Integrase core domain; Region: rve; pfam00665 568706007365 Integrase core domain; Region: rve_3; pfam13683 568706007366 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 568706007367 metal binding site [ion binding]; metal-binding site 568706007368 active site 568706007369 I-site; other site 568706007370 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 568706007371 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 568706007372 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 568706007373 dimer interface [polypeptide binding]; other site 568706007374 phosphorylation site [posttranslational modification] 568706007375 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 568706007376 ATP binding site [chemical binding]; other site 568706007377 Mg2+ binding site [ion binding]; other site 568706007378 G-X-G motif; other site 568706007379 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568706007380 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 568706007381 active site 568706007382 phosphorylation site [posttranslational modification] 568706007383 intermolecular recognition site; other site 568706007384 dimerization interface [polypeptide binding]; other site 568706007385 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 568706007386 DNA binding site [nucleotide binding] 568706007387 hypothetical protein; Validated; Region: PRK00029 568706007388 Uncharacterized conserved protein [Function unknown]; Region: COG0397 568706007389 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 568706007390 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 568706007391 FOG: CBS domain [General function prediction only]; Region: COG0517 568706007392 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_12; cd04625 568706007393 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007394 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007395 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007396 Integrase core domain; Region: rve; pfam00665 568706007397 Integrase core domain; Region: rve_3; pfam13683 568706007398 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 568706007399 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 568706007400 FMN binding site [chemical binding]; other site 568706007401 active site 568706007402 catalytic residues [active] 568706007403 substrate binding site [chemical binding]; other site 568706007404 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 568706007405 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 568706007406 putative active site [active] 568706007407 putative substrate binding site [chemical binding]; other site 568706007408 ATP binding site [chemical binding]; other site 568706007410 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007411 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007412 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007413 Integrase core domain; Region: rve; pfam00665 568706007414 Integrase core domain; Region: rve_3; pfam13683 568706007415 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 568706007416 Dimer interface [polypeptide binding]; other site 568706007417 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007418 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007419 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007420 Integrase core domain; Region: rve; pfam00665 568706007421 Integrase core domain; Region: rve_3; pfam13683 568706007422 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 568706007423 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 568706007424 dimerization domain [polypeptide binding]; other site 568706007425 dimer interface [polypeptide binding]; other site 568706007426 catalytic residues [active] 568706007429 Methyltransferase domain; Region: Methyltransf_32; pfam13679 568706007430 Methyltransferase domain; Region: Methyltransf_31; pfam13847 568706007431 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007432 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007433 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007434 Integrase core domain; Region: rve; pfam00665 568706007435 Integrase core domain; Region: rve_3; pfam13683 568706007436 haemagglutination activity domain; Region: Haemagg_act; pfam05860 568706007437 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 568706007438 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 568706007439 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 568706007440 dimerization interface [polypeptide binding]; other site 568706007441 ATP binding site [chemical binding]; other site 568706007442 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 568706007443 dimerization interface [polypeptide binding]; other site 568706007444 ATP binding site [chemical binding]; other site 568706007445 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 568706007446 putative active site [active] 568706007447 catalytic triad [active] 568706007448 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 568706007449 DctM-like transporters; Region: DctM; pfam06808 568706007450 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 568706007451 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 568706007452 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 568706007453 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007454 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007455 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007456 Integrase core domain; Region: rve; pfam00665 568706007457 Integrase core domain; Region: rve_3; pfam13683 568706007458 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 568706007459 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 568706007460 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 568706007461 active site 568706007462 AMP binding site [chemical binding]; other site 568706007463 homodimer interface [polypeptide binding]; other site 568706007464 acyl-activating enzyme (AAE) consensus motif; other site 568706007465 CoA binding site [chemical binding]; other site 568706007466 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 568706007467 CoenzymeA binding site [chemical binding]; other site 568706007468 subunit interaction site [polypeptide binding]; other site 568706007469 PHB binding site; other site 568706007470 enoyl-CoA hydratase; Provisional; Region: PRK08140 568706007471 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 568706007472 substrate binding site [chemical binding]; other site 568706007473 oxyanion hole (OAH) forming residues; other site 568706007474 trimer interface [polypeptide binding]; other site 568706007475 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 568706007476 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 568706007477 Phenylacetic acid degradation proteins PaaZ (Escherichia coli) and PaaN (Pseudomonas putida)-like; Region: ALDH_PAD-PaaZ; cd07127 568706007478 NADP binding site [chemical binding]; other site 568706007479 catalytic residues [active] 568706007481 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 568706007482 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 568706007483 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 568706007484 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 568706007485 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 568706007486 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 568706007487 PaaX-like protein; Region: PaaX; pfam07848 568706007488 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 568706007489 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 568706007490 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 568706007491 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 568706007492 catalytic site [active] 568706007493 putative active site [active] 568706007494 putative substrate binding site [chemical binding]; other site 568706007495 dimer interface [polypeptide binding]; other site 568706007496 Peptidase family M48; Region: Peptidase_M48; pfam01435 568706007497 GTPase RsgA; Reviewed; Region: PRK00098 568706007498 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 568706007499 RNA binding site [nucleotide binding]; other site 568706007500 homodimer interface [polypeptide binding]; other site 568706007501 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 568706007502 GTPase/Zn-binding domain interface [polypeptide binding]; other site 568706007503 GTP/Mg2+ binding site [chemical binding]; other site 568706007504 G4 box; other site 568706007505 G5 box; other site 568706007506 G1 box; other site 568706007507 Switch I region; other site 568706007508 G2 box; other site 568706007509 G3 box; other site 568706007510 Switch II region; other site 568706007513 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 568706007514 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706007515 dimer interface [polypeptide binding]; other site 568706007516 conserved gate region; other site 568706007517 putative PBP binding loops; other site 568706007518 ABC-ATPase subunit interface; other site 568706007519 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 568706007520 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 568706007521 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 568706007522 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 568706007523 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706007524 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706007525 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 568706007526 dimerization interface [polypeptide binding]; other site 568706007527 AAA domain; Region: AAA_17; pfam13207 568706007528 AAA domain; Region: AAA_18; pfam13238 568706007531 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 568706007532 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 568706007533 Nitrogen regulatory protein P-II; Region: P-II; smart00938 568706007534 NAD synthetase; Provisional; Region: PRK13981 568706007535 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 568706007536 multimer interface [polypeptide binding]; other site 568706007537 active site 568706007538 catalytic triad [active] 568706007539 protein interface 1 [polypeptide binding]; other site 568706007540 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 568706007541 homodimer interface [polypeptide binding]; other site 568706007542 NAD binding pocket [chemical binding]; other site 568706007543 ATP binding pocket [chemical binding]; other site 568706007544 Mg binding site [ion binding]; other site 568706007545 active-site loop [active] 568706007546 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 568706007547 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 568706007548 Mechanosensitive ion channel; Region: MS_channel; pfam00924 568706007549 argininosuccinate lyase; Provisional; Region: PRK00855 568706007550 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 568706007551 active sites [active] 568706007552 tetramer interface [polypeptide binding]; other site 568706007553 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 568706007554 putative FMN binding site [chemical binding]; other site 568706007555 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007556 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007557 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007558 Integrase core domain; Region: rve; pfam00665 568706007559 Integrase core domain; Region: rve_3; pfam13683 568706007560 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 568706007561 aminopeptidase N; Provisional; Region: pepN; PRK14015 568706007562 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 568706007563 active site 568706007564 Zn binding site [ion binding]; other site 568706007565 fructose-1,6-bisphosphatase family protein; Region: PLN02628 568706007566 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 568706007567 AMP binding site [chemical binding]; other site 568706007568 metal binding site [ion binding]; metal-binding site 568706007569 active site 568706007570 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007571 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007572 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007573 Integrase core domain; Region: rve; pfam00665 568706007574 Integrase core domain; Region: rve_3; pfam13683 568706007575 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 568706007576 homotrimer interaction site [polypeptide binding]; other site 568706007577 zinc binding site [ion binding]; other site 568706007578 CDP-binding sites; other site 568706007579 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 568706007580 substrate binding site; other site 568706007581 dimer interface; other site 568706007582 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 568706007583 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 568706007584 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 568706007585 ATP binding site [chemical binding]; other site 568706007586 putative Mg++ binding site [ion binding]; other site 568706007587 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 568706007588 nucleotide binding region [chemical binding]; other site 568706007589 ATP-binding site [chemical binding]; other site 568706007590 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 568706007591 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 568706007592 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 568706007593 motif II; other site 568706007594 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706007595 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706007596 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 568706007597 putative dimerization interface [polypeptide binding]; other site 568706007598 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706007599 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 568706007600 acetolactate synthase catalytic subunit; Validated; Region: PRK06112 568706007601 PYR/PP interface [polypeptide binding]; other site 568706007602 dimer interface [polypeptide binding]; other site 568706007603 TPP binding site [chemical binding]; other site 568706007604 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 568706007605 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 568706007606 TPP-binding site [chemical binding]; other site 568706007607 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 568706007608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706007609 NAD(P) binding site [chemical binding]; other site 568706007610 active site 568706007611 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 568706007612 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 568706007613 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 568706007614 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 568706007615 N-terminal plug; other site 568706007616 ligand-binding site [chemical binding]; other site 568706007618 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 568706007619 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 568706007620 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 568706007621 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 568706007622 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 568706007623 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 568706007624 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 568706007625 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 568706007626 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 568706007627 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 568706007628 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 568706007629 4Fe-4S binding domain; Region: Fer4; pfam00037 568706007630 4Fe-4S binding domain; Region: Fer4; cl02805 568706007631 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 568706007632 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 568706007633 NADH dehydrogenase subunit G; Validated; Region: PRK09129 568706007634 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 568706007635 catalytic loop [active] 568706007636 iron binding site [ion binding]; other site 568706007637 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 568706007638 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 568706007639 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 568706007640 SLBB domain; Region: SLBB; pfam10531 568706007641 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 568706007642 NADH dehydrogenase subunit E; Validated; Region: PRK07539 568706007643 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 568706007644 putative dimer interface [polypeptide binding]; other site 568706007645 [2Fe-2S] cluster binding site [ion binding]; other site 568706007646 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 568706007647 NADH dehydrogenase subunit D; Validated; Region: PRK06075 568706007648 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 568706007649 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 568706007650 NADH dehydrogenase subunit B; Validated; Region: PRK06411 568706007651 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 568706007652 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 568706007653 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 568706007654 trimer interface [polypeptide binding]; other site 568706007655 eyelet of channel; other site 568706007656 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007657 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007658 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007659 Integrase core domain; Region: rve; pfam00665 568706007660 Integrase core domain; Region: rve_3; pfam13683 568706007661 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 568706007662 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 568706007663 23S rRNA binding site [nucleotide binding]; other site 568706007664 L21 binding site [polypeptide binding]; other site 568706007665 L13 binding site [polypeptide binding]; other site 568706007666 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 568706007667 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 568706007668 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 568706007669 dimer interface [polypeptide binding]; other site 568706007670 motif 1; other site 568706007671 active site 568706007672 motif 2; other site 568706007673 motif 3; other site 568706007674 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 568706007675 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 568706007676 putative tRNA-binding site [nucleotide binding]; other site 568706007677 B3/4 domain; Region: B3_4; pfam03483 568706007678 tRNA synthetase B5 domain; Region: B5; smart00874 568706007679 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 568706007680 dimer interface [polypeptide binding]; other site 568706007681 motif 1; other site 568706007682 motif 3; other site 568706007683 motif 2; other site 568706007684 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 568706007685 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 568706007686 IHF - DNA interface [nucleotide binding]; other site 568706007687 IHF dimer interface [polypeptide binding]; other site 568706007688 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 568706007689 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 568706007690 DNA binding residues [nucleotide binding] 568706007691 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 568706007692 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 568706007693 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 568706007694 S-adenosylmethionine binding site [chemical binding]; other site 568706007697 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 568706007698 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 568706007699 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 568706007700 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007701 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007702 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007703 Integrase core domain; Region: rve; pfam00665 568706007704 Integrase core domain; Region: rve_3; pfam13683 568706007706 Transcriptional regulators [Transcription]; Region: PurR; COG1609 568706007707 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 568706007708 DNA binding site [nucleotide binding] 568706007709 domain linker motif; other site 568706007710 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 568706007711 dimerization interface [polypeptide binding]; other site 568706007712 ligand binding site [chemical binding]; other site 568706007713 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 568706007714 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 568706007715 Walker A/P-loop; other site 568706007716 ATP binding site [chemical binding]; other site 568706007717 Q-loop/lid; other site 568706007718 ABC transporter signature motif; other site 568706007719 Walker B; other site 568706007720 D-loop; other site 568706007721 H-loop/switch region; other site 568706007722 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 568706007723 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 568706007724 Walker A/P-loop; other site 568706007725 ATP binding site [chemical binding]; other site 568706007726 Q-loop/lid; other site 568706007727 ABC transporter signature motif; other site 568706007728 Walker B; other site 568706007729 D-loop; other site 568706007730 H-loop/switch region; other site 568706007731 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 568706007732 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 568706007733 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 568706007734 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706007735 dimer interface [polypeptide binding]; other site 568706007736 conserved gate region; other site 568706007737 putative PBP binding loops; other site 568706007738 ABC-ATPase subunit interface; other site 568706007739 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 568706007740 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706007741 dimer interface [polypeptide binding]; other site 568706007742 conserved gate region; other site 568706007743 putative PBP binding loops; other site 568706007744 ABC-ATPase subunit interface; other site 568706007745 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 568706007746 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 568706007748 Uncharacterized conserved protein [Function unknown]; Region: COG5649 568706007749 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 568706007750 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 568706007752 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007753 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007754 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007755 Integrase core domain; Region: rve; pfam00665 568706007756 Integrase core domain; Region: rve_3; pfam13683 568706007757 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 568706007758 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 568706007759 putative NAD(P) binding site [chemical binding]; other site 568706007760 putative substrate binding site [chemical binding]; other site 568706007761 catalytic Zn binding site [ion binding]; other site 568706007762 structural Zn binding site [ion binding]; other site 568706007763 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 568706007764 Transcriptional activator [Transcription]; Region: ChrR; COG3806 568706007765 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 568706007766 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 568706007768 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 568706007769 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 568706007770 conserved cys residue [active] 568706007771 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568706007772 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 568706007773 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 568706007774 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 568706007775 Predicted membrane protein [Function unknown]; Region: COG1289 568706007776 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007777 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007778 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007779 Integrase core domain; Region: rve; pfam00665 568706007780 Integrase core domain; Region: rve_3; pfam13683 568706007782 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 568706007783 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 568706007784 Sulfate transporter family; Region: Sulfate_transp; pfam00916 568706007785 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 568706007788 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 568706007789 substrate binding site [chemical binding]; other site 568706007790 Protein of unknown function (DUF521); Region: DUF521; pfam04412 568706007791 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 568706007792 substrate binding site [chemical binding]; other site 568706007793 ligand binding site [chemical binding]; other site 568706007794 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 568706007795 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706007796 dimer interface [polypeptide binding]; other site 568706007797 conserved gate region; other site 568706007798 putative PBP binding loops; other site 568706007799 ABC-ATPase subunit interface; other site 568706007800 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 568706007801 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 568706007802 Walker A/P-loop; other site 568706007803 ATP binding site [chemical binding]; other site 568706007804 Q-loop/lid; other site 568706007805 ABC transporter signature motif; other site 568706007806 Walker B; other site 568706007807 D-loop; other site 568706007808 H-loop/switch region; other site 568706007809 NMT1-like family; Region: NMT1_2; pfam13379 568706007810 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 568706007811 substrate binding pocket [chemical binding]; other site 568706007812 membrane-bound complex binding site; other site 568706007813 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 568706007814 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 568706007815 active site 568706007816 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706007817 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 568706007818 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706007820 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 568706007821 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 568706007822 putative substrate translocation pore; other site 568706007823 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568706007824 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568706007825 HipA N-terminal domain; Region: Couple_hipA; pfam13657 568706007826 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 568706007827 HipA-like N-terminal domain; Region: HipA_N; pfam07805 568706007828 HipA-like C-terminal domain; Region: HipA_C; pfam07804 568706007829 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 568706007830 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 568706007831 non-specific DNA binding site [nucleotide binding]; other site 568706007832 salt bridge; other site 568706007833 sequence-specific DNA binding site [nucleotide binding]; other site 568706007834 GMP synthase; Reviewed; Region: guaA; PRK00074 568706007835 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 568706007836 AMP/PPi binding site [chemical binding]; other site 568706007837 candidate oxyanion hole; other site 568706007838 catalytic triad [active] 568706007839 potential glutamine specificity residues [chemical binding]; other site 568706007840 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 568706007841 ATP Binding subdomain [chemical binding]; other site 568706007842 Ligand Binding sites [chemical binding]; other site 568706007843 Dimerization subdomain; other site 568706007844 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 568706007845 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 568706007846 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 568706007847 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 568706007848 active site 568706007849 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; cl01461 568706007850 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007851 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007852 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007853 Integrase core domain; Region: rve; pfam00665 568706007854 Integrase core domain; Region: rve_3; pfam13683 568706007856 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706007857 AAA domain; Region: AAA_23; pfam13476 568706007858 Walker A/P-loop; other site 568706007859 ATP binding site [chemical binding]; other site 568706007860 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 568706007861 active site 568706007862 metal binding site [ion binding]; metal-binding site 568706007863 DNA binding site [nucleotide binding] 568706007864 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 568706007865 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568706007866 hydroxyglutarate oxidase; Provisional; Region: PRK11728 568706007867 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 568706007868 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 568706007869 putative DNA binding site [nucleotide binding]; other site 568706007870 putative Zn2+ binding site [ion binding]; other site 568706007871 AsnC family; Region: AsnC_trans_reg; pfam01037 568706007872 Protein of unknown function (DUF502); Region: DUF502; pfam04367 568706007873 transglutaminase; Provisional; Region: tgl; PRK03187 568706007874 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 568706007875 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 568706007876 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 568706007877 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706007878 dimer interface [polypeptide binding]; other site 568706007879 conserved gate region; other site 568706007880 putative PBP binding loops; other site 568706007881 ABC-ATPase subunit interface; other site 568706007883 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 568706007884 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 568706007885 Walker A/P-loop; other site 568706007886 ATP binding site [chemical binding]; other site 568706007887 Q-loop/lid; other site 568706007888 ABC transporter signature motif; other site 568706007889 Walker B; other site 568706007890 D-loop; other site 568706007891 H-loop/switch region; other site 568706007893 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 568706007894 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 568706007895 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 568706007896 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 568706007897 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706007898 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 568706007899 putative DNA binding site [nucleotide binding]; other site 568706007900 putative Zn2+ binding site [ion binding]; other site 568706007901 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706007903 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 568706007904 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 568706007905 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 568706007906 L-aspartate oxidase; Provisional; Region: PRK06175 568706007907 Predicted oxidoreductase [General function prediction only]; Region: COG3573 568706007908 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 568706007910 NRDE protein; Region: NRDE; cl01315 568706007911 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 568706007912 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706007913 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 568706007914 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 568706007915 inhibitor site; inhibition site 568706007916 active site 568706007917 dimer interface [polypeptide binding]; other site 568706007918 catalytic residue [active] 568706007919 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706007920 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 568706007921 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706007922 MAPEG family; Region: MAPEG; cl09190 568706007923 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 568706007924 hypothetical protein; Provisional; Region: PRK09256 568706007925 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 568706007926 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 568706007927 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 568706007928 active site 568706007929 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 568706007930 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 568706007931 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 568706007932 intersubunit interface [polypeptide binding]; other site 568706007933 active site 568706007934 Zn2+ binding site [ion binding]; other site 568706007935 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 568706007936 non-specific DNA binding site [nucleotide binding]; other site 568706007937 salt bridge; other site 568706007938 sequence-specific DNA binding site [nucleotide binding]; other site 568706007939 Cupin domain; Region: Cupin_2; pfam07883 568706007940 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 568706007941 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 568706007943 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706007944 Winged helix-turn helix; Region: HTH_29; pfam13551 568706007945 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706007946 Integrase core domain; Region: rve; pfam00665 568706007947 Integrase core domain; Region: rve_3; pfam13683 568706007948 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 568706007949 putative RNAase interaction site [polypeptide binding]; other site 568706007951 malic enzyme; Reviewed; Region: PRK12861 568706007952 Malic enzyme, N-terminal domain; Region: malic; pfam00390 568706007953 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 568706007954 putative NAD(P) binding site [chemical binding]; other site 568706007955 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 568706007956 aminotransferase; Validated; Region: PRK07337 568706007957 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 568706007958 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706007959 homodimer interface [polypeptide binding]; other site 568706007960 catalytic residue [active] 568706007961 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 568706007962 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 568706007963 N-acetyl-D-glucosamine binding site [chemical binding]; other site 568706007964 catalytic residue [active] 568706007965 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 568706007966 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 568706007967 siroheme synthase; Provisional; Region: cysG; PRK10637 568706007968 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 568706007969 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 568706007970 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 568706007971 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 568706007972 active site 568706007973 SAM binding site [chemical binding]; other site 568706007974 homodimer interface [polypeptide binding]; other site 568706007975 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 568706007976 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 568706007977 Autotransporter beta-domain; Region: Autotransporter; pfam03797 568706007978 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706007979 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706007980 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706007981 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568706007982 active site 568706007983 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 568706007984 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 568706007985 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 568706007986 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 568706007987 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 568706007988 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 568706007989 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 568706007990 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 568706007991 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 568706007992 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 568706007993 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 568706007994 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 568706007995 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 568706007996 Protein export membrane protein; Region: SecD_SecF; pfam02355 568706007997 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706007998 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706007999 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706008001 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 568706008002 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 568706008003 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 568706008004 FeS/SAM binding site; other site 568706008005 TRAM domain; Region: TRAM; pfam01938 568706008006 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 568706008007 PhoH-like protein; Region: PhoH; pfam02562 568706008008 metal-binding heat shock protein; Provisional; Region: PRK00016 568706008009 FOG: CBS domain [General function prediction only]; Region: COG0517 568706008010 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 568706008011 Transporter associated domain; Region: CorC_HlyC; smart01091 568706008012 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 568706008013 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 568706008014 putative active site [active] 568706008015 catalytic triad [active] 568706008016 putative dimer interface [polypeptide binding]; other site 568706008017 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 568706008018 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 568706008019 active site 568706008020 catalytic tetrad [active] 568706008021 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706008022 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706008023 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706008024 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568706008025 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568706008026 biotin synthase; Region: bioB; TIGR00433 568706008027 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 568706008028 FeS/SAM binding site; other site 568706008029 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 568706008030 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 568706008031 putative MFS family transporter protein; Provisional; Region: PRK03633 568706008032 putative substrate translocation pore; other site 568706008033 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 568706008034 catalytic triad [active] 568706008035 dimer interface [polypeptide binding]; other site 568706008036 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 568706008037 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 568706008038 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 568706008039 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 568706008040 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 568706008041 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 568706008042 ligand binding site [chemical binding]; other site 568706008043 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 568706008044 trimer interface [polypeptide binding]; other site 568706008045 dimer interface [polypeptide binding]; other site 568706008046 putative active site [active] 568706008047 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 568706008048 MoaE interaction surface [polypeptide binding]; other site 568706008049 MoeB interaction surface [polypeptide binding]; other site 568706008050 thiocarboxylated glycine; other site 568706008051 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 568706008052 MoaE homodimer interface [polypeptide binding]; other site 568706008053 MoaD interaction [polypeptide binding]; other site 568706008054 active site residues [active] 568706008055 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 568706008056 MPT binding site; other site 568706008057 trimer interface [polypeptide binding]; other site 568706008058 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 568706008059 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 568706008060 dimer interface [polypeptide binding]; other site 568706008061 putative functional site; other site 568706008062 putative MPT binding site; other site 568706008063 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 568706008064 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 568706008065 FeS/SAM binding site; other site 568706008066 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 568706008067 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 568706008068 PBP superfamily domain; Region: PBP_like; pfam12727 568706008069 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706008070 Winged helix-turn helix; Region: HTH_29; pfam13551 568706008071 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706008072 Integrase core domain; Region: rve; pfam00665 568706008073 Integrase core domain; Region: rve_3; pfam13683 568706008074 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 568706008075 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 568706008076 RNase E interface [polypeptide binding]; other site 568706008077 trimer interface [polypeptide binding]; other site 568706008078 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 568706008079 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 568706008080 RNase E interface [polypeptide binding]; other site 568706008081 trimer interface [polypeptide binding]; other site 568706008082 active site 568706008083 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 568706008084 putative nucleic acid binding region [nucleotide binding]; other site 568706008085 G-X-X-G motif; other site 568706008086 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 568706008087 RNA binding site [nucleotide binding]; other site 568706008088 domain interface; other site 568706008089 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 568706008090 16S/18S rRNA binding site [nucleotide binding]; other site 568706008091 S13e-L30e interaction site [polypeptide binding]; other site 568706008092 25S rRNA binding site [nucleotide binding]; other site 568706008093 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 568706008094 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 568706008095 ketol-acid reductoisomerase; Provisional; Region: PRK05479 568706008096 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 568706008097 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 568706008098 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 568706008099 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 568706008100 putative valine binding site [chemical binding]; other site 568706008101 dimer interface [polypeptide binding]; other site 568706008102 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 568706008103 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 568706008104 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 568706008105 PYR/PP interface [polypeptide binding]; other site 568706008106 dimer interface [polypeptide binding]; other site 568706008107 TPP binding site [chemical binding]; other site 568706008108 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 568706008109 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 568706008110 TPP-binding site [chemical binding]; other site 568706008111 dimer interface [polypeptide binding]; other site 568706008113 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706008114 Winged helix-turn helix; Region: HTH_29; pfam13551 568706008115 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706008116 Integrase core domain; Region: rve; pfam00665 568706008117 Integrase core domain; Region: rve_3; pfam13683 568706008119 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 568706008120 Major Facilitator Superfamily; Region: MFS_1; pfam07690 568706008121 putative substrate translocation pore; other site 568706008122 hypothetical protein; Validated; Region: PRK02101 568706008123 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706008124 Winged helix-turn helix; Region: HTH_29; pfam13551 568706008125 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706008126 Integrase core domain; Region: rve; pfam00665 568706008127 Integrase core domain; Region: rve_3; pfam13683 568706008128 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 568706008129 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 568706008130 NAD binding site [chemical binding]; other site 568706008131 homotetramer interface [polypeptide binding]; other site 568706008132 homodimer interface [polypeptide binding]; other site 568706008133 substrate binding site [chemical binding]; other site 568706008134 active site 568706008135 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 568706008136 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 568706008137 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 568706008138 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 568706008139 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 568706008140 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 568706008141 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 568706008142 IucA / IucC family; Region: IucA_IucC; pfam04183 568706008143 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 568706008144 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 568706008145 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 568706008146 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 568706008147 [2Fe-2S] cluster binding site [ion binding]; other site 568706008148 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 568706008149 alpha subunit interface [polypeptide binding]; other site 568706008150 active site 568706008151 substrate binding site [chemical binding]; other site 568706008152 Fe binding site [ion binding]; other site 568706008153 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 568706008154 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568706008155 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 568706008156 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 568706008157 putative substrate translocation pore; other site 568706008158 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 568706008159 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 568706008160 N-terminal plug; other site 568706008161 ligand-binding site [chemical binding]; other site 568706008162 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 568706008163 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 568706008164 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 568706008165 metal binding site [ion binding]; metal-binding site 568706008166 active site 568706008167 I-site; other site 568706008168 seryl-tRNA synthetase; Provisional; Region: PRK05431 568706008169 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 568706008170 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 568706008171 dimer interface [polypeptide binding]; other site 568706008172 active site 568706008173 motif 1; other site 568706008174 motif 2; other site 568706008175 motif 3; other site 568706008176 recombination factor protein RarA; Reviewed; Region: PRK13342 568706008177 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 568706008178 Walker A motif; other site 568706008179 ATP binding site [chemical binding]; other site 568706008180 Walker B motif; other site 568706008181 arginine finger; other site 568706008182 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 568706008183 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 568706008184 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 568706008185 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 568706008186 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 568706008187 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 568706008188 thioredoxin reductase; Provisional; Region: PRK10262 568706008189 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 568706008190 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568706008191 Smr domain; Region: Smr; pfam01713 568706008192 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 568706008193 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706008194 Winged helix-turn helix; Region: HTH_29; pfam13551 568706008195 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706008196 Integrase core domain; Region: rve; pfam00665 568706008197 Integrase core domain; Region: rve_3; pfam13683 568706008199 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 568706008200 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 568706008201 dimer interface [polypeptide binding]; other site 568706008202 active site 568706008203 citrylCoA binding site [chemical binding]; other site 568706008204 NADH binding [chemical binding]; other site 568706008205 cationic pore residues; other site 568706008206 oxalacetate/citrate binding site [chemical binding]; other site 568706008207 coenzyme A binding site [chemical binding]; other site 568706008208 catalytic triad [active] 568706008209 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 568706008210 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 568706008211 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 568706008212 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 568706008213 L-aspartate oxidase; Provisional; Region: PRK06175 568706008214 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 568706008215 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 568706008216 SdhC subunit interface [polypeptide binding]; other site 568706008217 proximal heme binding site [chemical binding]; other site 568706008218 cardiolipin binding site; other site 568706008219 Iron-sulfur protein interface; other site 568706008220 proximal quinone binding site [chemical binding]; other site 568706008221 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 568706008222 Iron-sulfur protein interface; other site 568706008223 proximal quinone binding site [chemical binding]; other site 568706008224 SdhD (CybS) interface [polypeptide binding]; other site 568706008225 proximal heme binding site [chemical binding]; other site 568706008226 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 568706008227 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706008228 DNA-binding site [nucleotide binding]; DNA binding site 568706008229 UTRA domain; Region: UTRA; pfam07702 568706008230 malate dehydrogenase; Provisional; Region: PRK05442 568706008231 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 568706008232 NAD(P) binding site [chemical binding]; other site 568706008233 dimer interface [polypeptide binding]; other site 568706008234 malate binding site [chemical binding]; other site 568706008236 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 568706008237 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 568706008238 dimer interface [polypeptide binding]; other site 568706008239 active site 568706008240 citrylCoA binding site [chemical binding]; other site 568706008241 oxalacetate/citrate binding site [chemical binding]; other site 568706008242 coenzyme A binding site [chemical binding]; other site 568706008243 catalytic triad [active] 568706008244 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 568706008245 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 568706008246 substrate binding site [chemical binding]; other site 568706008247 ligand binding site [chemical binding]; other site 568706008248 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 568706008249 substrate binding site [chemical binding]; other site 568706008250 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 568706008251 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 568706008252 2-methylcitrate dehydratase; Region: prpD; TIGR02330 568706008253 Predicted membrane protein [Function unknown]; Region: COG1981 568706008254 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 568706008255 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 568706008256 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 568706008257 S-adenosylmethionine binding site [chemical binding]; other site 568706008259 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 568706008260 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 568706008261 putative active site [active] 568706008262 putative metal binding site [ion binding]; other site 568706008263 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 568706008264 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 568706008265 active site 568706008266 acyl-activating enzyme (AAE) consensus motif; other site 568706008267 putative CoA binding site [chemical binding]; other site 568706008268 AMP binding site [chemical binding]; other site 568706008269 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 568706008270 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 568706008271 trimer interface [polypeptide binding]; other site 568706008272 putative metal binding site [ion binding]; other site 568706008273 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 568706008274 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 568706008275 dimerization interface [polypeptide binding]; other site 568706008276 domain crossover interface; other site 568706008277 redox-dependent activation switch; other site 568706008278 Cupin domain; Region: Cupin_2; pfam07883 568706008279 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 568706008280 Uncharacterized conserved protein [Function unknown]; Region: COG2128 568706008281 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706008282 NADH(P)-binding; Region: NAD_binding_10; pfam13460 568706008283 NAD(P) binding site [chemical binding]; other site 568706008284 active site 568706008285 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568706008286 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 568706008287 DNA binding site [nucleotide binding] 568706008288 Predicted integral membrane protein [Function unknown]; Region: COG5616 568706008289 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 568706008290 TPR motif; other site 568706008291 binding surface 568706008292 TPR repeat; Region: TPR_11; pfam13414 568706008293 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 568706008294 TPR motif; other site 568706008295 TPR repeat; Region: TPR_11; pfam13414 568706008296 binding surface 568706008297 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 568706008298 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 568706008299 enolase; Provisional; Region: eno; PRK00077 568706008300 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 568706008301 dimer interface [polypeptide binding]; other site 568706008302 metal binding site [ion binding]; metal-binding site 568706008303 substrate binding pocket [chemical binding]; other site 568706008304 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 568706008305 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 568706008306 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 568706008307 CTP synthetase; Validated; Region: pyrG; PRK05380 568706008308 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 568706008309 Catalytic site [active] 568706008310 active site 568706008311 UTP binding site [chemical binding]; other site 568706008312 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 568706008313 active site 568706008314 putative oxyanion hole; other site 568706008315 catalytic triad [active] 568706008316 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 568706008317 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 568706008318 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 568706008319 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 568706008320 active site 568706008322 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 568706008323 homodimer interface [polypeptide binding]; other site 568706008324 homotetramer interface [polypeptide binding]; other site 568706008325 active site pocket [active] 568706008326 cleavage site 568706008327 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 568706008328 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 568706008329 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706008330 dimer interface [polypeptide binding]; other site 568706008331 conserved gate region; other site 568706008332 putative PBP binding loops; other site 568706008333 ABC-ATPase subunit interface; other site 568706008334 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 568706008335 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706008336 dimer interface [polypeptide binding]; other site 568706008337 conserved gate region; other site 568706008338 putative PBP binding loops; other site 568706008339 ABC-ATPase subunit interface; other site 568706008340 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 568706008341 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 568706008342 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 568706008343 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 568706008344 Walker A/P-loop; other site 568706008345 ATP binding site [chemical binding]; other site 568706008346 Q-loop/lid; other site 568706008347 ABC transporter signature motif; other site 568706008348 Walker B; other site 568706008349 D-loop; other site 568706008350 H-loop/switch region; other site 568706008351 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 568706008352 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 568706008353 Walker A/P-loop; other site 568706008354 ATP binding site [chemical binding]; other site 568706008355 Q-loop/lid; other site 568706008356 ABC transporter signature motif; other site 568706008357 Walker B; other site 568706008358 D-loop; other site 568706008359 H-loop/switch region; other site 568706008360 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 568706008361 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 568706008362 catalytic nucleophile [active] 568706008363 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 568706008364 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 568706008365 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 568706008366 putative active site [active] 568706008369 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 568706008370 active site 568706008371 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 568706008372 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 568706008373 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 568706008374 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706008375 NAD(P) binding site [chemical binding]; other site 568706008376 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 568706008377 active site 568706008378 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 568706008379 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706008380 Winged helix-turn helix; Region: HTH_29; pfam13551 568706008381 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706008382 Integrase core domain; Region: rve; pfam00665 568706008383 Integrase core domain; Region: rve_3; pfam13683 568706008385 EamA-like transporter family; Region: EamA; pfam00892 568706008386 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 568706008387 EamA-like transporter family; Region: EamA; pfam00892 568706008388 acetyl-CoA synthetase; Provisional; Region: PRK00174 568706008389 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 568706008390 active site 568706008391 CoA binding site [chemical binding]; other site 568706008392 acyl-activating enzyme (AAE) consensus motif; other site 568706008393 AMP binding site [chemical binding]; other site 568706008394 acetate binding site [chemical binding]; other site 568706008395 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706008396 Winged helix-turn helix; Region: HTH_29; pfam13551 568706008397 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706008398 Integrase core domain; Region: rve; pfam00665 568706008399 Integrase core domain; Region: rve_3; pfam13683 568706008400 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 568706008401 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 568706008402 putative substrate translocation pore; other site 568706008403 Domain of unknown function (DUF336); Region: DUF336; cl01249 568706008405 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 568706008406 NlpC/P60 family; Region: NLPC_P60; pfam00877 568706008407 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 568706008408 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706008409 Winged helix-turn helix; Region: HTH_29; pfam13551 568706008410 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706008411 Integrase core domain; Region: rve; pfam00665 568706008412 Integrase core domain; Region: rve_3; pfam13683 568706008413 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 568706008414 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706008415 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 568706008416 substrate binding site [chemical binding]; other site 568706008417 dimerization interface [polypeptide binding]; other site 568706008418 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 568706008419 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 568706008420 tetrameric interface [polypeptide binding]; other site 568706008421 NAD binding site [chemical binding]; other site 568706008422 catalytic residues [active] 568706008423 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 568706008424 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 568706008425 putative ligand binding site [chemical binding]; other site 568706008426 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706008427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706008428 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 568706008429 dimerization interface [polypeptide binding]; other site 568706008430 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 568706008431 Predicted permeases [General function prediction only]; Region: COG0795 568706008432 multifunctional aminopeptidase A; Provisional; Region: PRK00913 568706008433 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 568706008434 interface (dimer of trimers) [polypeptide binding]; other site 568706008435 Substrate-binding/catalytic site; other site 568706008436 Zn-binding sites [ion binding]; other site 568706008437 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 568706008438 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 568706008439 YccA-like proteins; Region: YccA_like; cd10433 568706008440 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706008441 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 568706008442 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 568706008443 active site 568706008444 Zn binding site [ion binding]; other site 568706008445 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 568706008446 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 568706008447 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568706008448 catalytic residue [active] 568706008449 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 568706008450 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706008451 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 568706008452 dimerization interface [polypeptide binding]; other site 568706008453 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 568706008454 Recombination protein O N terminal; Region: RecO_N; pfam11967 568706008455 Recombination protein O C terminal; Region: RecO_C; pfam02565 568706008456 GTPase Era; Reviewed; Region: era; PRK00089 568706008457 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 568706008458 G1 box; other site 568706008459 GTP/Mg2+ binding site [chemical binding]; other site 568706008460 Switch I region; other site 568706008461 G2 box; other site 568706008462 Switch II region; other site 568706008463 G3 box; other site 568706008464 G4 box; other site 568706008465 G5 box; other site 568706008466 KH domain; Region: KH_2; pfam07650 568706008467 ribonuclease III; Reviewed; Region: rnc; PRK00102 568706008468 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 568706008469 dimerization interface [polypeptide binding]; other site 568706008470 active site 568706008471 metal binding site [ion binding]; metal-binding site 568706008472 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 568706008473 dsRNA binding site [nucleotide binding]; other site 568706008474 signal peptidase I; Provisional; Region: PRK10861 568706008475 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 568706008476 Catalytic site [active] 568706008477 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 568706008478 GTP-binding protein LepA; Provisional; Region: PRK05433 568706008479 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 568706008480 G1 box; other site 568706008481 putative GEF interaction site [polypeptide binding]; other site 568706008482 GTP/Mg2+ binding site [chemical binding]; other site 568706008483 Switch I region; other site 568706008484 G2 box; other site 568706008485 G3 box; other site 568706008486 Switch II region; other site 568706008487 G4 box; other site 568706008488 G5 box; other site 568706008489 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 568706008490 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 568706008491 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 568706008492 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 568706008493 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 568706008494 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 568706008495 protein binding site [polypeptide binding]; other site 568706008496 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 568706008497 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 568706008498 anti-sigma E factor; Provisional; Region: rseB; PRK09455 568706008499 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 568706008500 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 568706008501 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 568706008502 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 568706008503 DNA binding residues [nucleotide binding] 568706008504 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 568706008505 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 568706008506 dimer interface [polypeptide binding]; other site 568706008507 active site 568706008508 acyl carrier protein; Provisional; Region: acpP; PRK00982 568706008509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706008510 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 568706008511 NAD(P) binding site [chemical binding]; other site 568706008512 active site 568706008513 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 568706008514 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 568706008515 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 568706008516 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 568706008517 dimer interface [polypeptide binding]; other site 568706008518 active site 568706008519 CoA binding pocket [chemical binding]; other site 568706008520 putative phosphate acyltransferase; Provisional; Region: PRK05331 568706008521 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 568706008522 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 568706008523 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 568706008524 active site 568706008525 dimer interface [polypeptide binding]; other site 568706008526 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 568706008527 putative SAM binding site [chemical binding]; other site 568706008528 homodimer interface [polypeptide binding]; other site 568706008529 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 568706008530 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 568706008531 amidase catalytic site [active] 568706008532 Zn binding residues [ion binding]; other site 568706008533 substrate binding site [chemical binding]; other site 568706008534 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 568706008535 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706008536 Winged helix-turn helix; Region: HTH_29; pfam13551 568706008537 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706008538 Integrase core domain; Region: rve; pfam00665 568706008539 Integrase core domain; Region: rve_3; pfam13683 568706008540 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 568706008541 TMAO/DMSO reductase; Reviewed; Region: PRK05363 568706008542 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 568706008543 Moco binding site; other site 568706008544 metal coordination site [ion binding]; other site 568706008545 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 568706008546 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 568706008547 motif II; other site 568706008548 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 568706008549 S4 domain; Region: S4; pfam01479 568706008550 RNA binding surface [nucleotide binding]; other site 568706008551 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 568706008552 active site 568706008553 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 568706008554 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 568706008555 homodimer interface [polypeptide binding]; other site 568706008556 oligonucleotide binding site [chemical binding]; other site 568706008557 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 568706008558 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 568706008561 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 568706008562 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 568706008563 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 568706008564 substrate binding site [chemical binding]; other site 568706008565 active site 568706008566 catalytic residues [active] 568706008567 heterodimer interface [polypeptide binding]; other site 568706008568 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 568706008569 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 568706008570 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706008571 catalytic residue [active] 568706008572 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706008573 Winged helix-turn helix; Region: HTH_29; pfam13551 568706008574 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 568706008575 Integrase core domain; Region: rve; pfam00665 568706008576 Integrase core domain; Region: rve_3; pfam13683 568706008577 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706008578 Winged helix-turn helix; Region: HTH_29; pfam13551 568706008579 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706008580 Integrase core domain; Region: rve; pfam00665 568706008581 Integrase core domain; Region: rve_3; pfam13683 568706008582 acetylornithine deacetylase; Provisional; Region: PRK07522 568706008583 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 568706008584 metal binding site [ion binding]; metal-binding site 568706008585 putative dimer interface [polypeptide binding]; other site 568706008586 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 568706008587 HD domain; Region: HD_4; pfam13328 568706008588 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 568706008589 synthetase active site [active] 568706008590 NTP binding site [chemical binding]; other site 568706008591 metal binding site [ion binding]; metal-binding site 568706008592 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 568706008593 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 568706008594 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 568706008596 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 568706008597 homotrimer interaction site [polypeptide binding]; other site 568706008598 putative active site [active] 568706008599 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 568706008600 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 568706008601 active site 568706008602 Ferredoxin [Energy production and conversion]; Region: COG1146 568706008603 4Fe-4S binding domain; Region: Fer4; cl02805 568706008604 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 568706008605 ferredoxin-NADP reductase; Provisional; Region: PRK10926 568706008606 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 568706008607 FAD binding pocket [chemical binding]; other site 568706008608 FAD binding motif [chemical binding]; other site 568706008609 phosphate binding motif [ion binding]; other site 568706008610 beta-alpha-beta structure motif; other site 568706008611 NAD binding pocket [chemical binding]; other site 568706008612 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 568706008613 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 568706008614 ferredoxin; Provisional; Region: PRK08764 568706008615 Putative Fe-S cluster; Region: FeS; cl17515 568706008616 4Fe-4S binding domain; Region: Fer4; cl02805 568706008617 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 568706008618 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 568706008619 minor groove reading motif; other site 568706008620 helix-hairpin-helix signature motif; other site 568706008621 substrate binding pocket [chemical binding]; other site 568706008622 active site 568706008623 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 568706008624 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 568706008625 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 568706008626 Walker A/P-loop; other site 568706008627 ATP binding site [chemical binding]; other site 568706008628 Q-loop/lid; other site 568706008629 ABC transporter signature motif; other site 568706008630 Walker B; other site 568706008631 D-loop; other site 568706008632 H-loop/switch region; other site 568706008633 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 568706008634 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 568706008635 Walker A/P-loop; other site 568706008636 ATP binding site [chemical binding]; other site 568706008637 Q-loop/lid; other site 568706008638 ABC transporter signature motif; other site 568706008639 Walker B; other site 568706008640 D-loop; other site 568706008641 H-loop/switch region; other site 568706008642 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 568706008643 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 568706008644 putative ligand binding site [chemical binding]; other site 568706008645 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 568706008646 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 568706008647 TM-ABC transporter signature motif; other site 568706008648 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 568706008649 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 568706008650 TM-ABC transporter signature motif; other site 568706008651 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 568706008652 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 568706008653 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 568706008654 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 568706008655 homodimer interface [polypeptide binding]; other site 568706008656 substrate-cofactor binding pocket; other site 568706008657 catalytic residue [active] 568706008658 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 568706008659 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 568706008660 TM-ABC transporter signature motif; other site 568706008661 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 568706008662 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 568706008663 Walker A/P-loop; other site 568706008664 ATP binding site [chemical binding]; other site 568706008665 Q-loop/lid; other site 568706008666 ABC transporter signature motif; other site 568706008667 Walker B; other site 568706008668 D-loop; other site 568706008669 H-loop/switch region; other site 568706008670 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 568706008671 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 568706008672 TM-ABC transporter signature motif; other site 568706008673 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 568706008674 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 568706008675 putative ligand binding site [chemical binding]; other site 568706008676 BioY family; Region: BioY; pfam02632 568706008677 Cobalt transport protein; Region: CbiQ; cl00463 568706008678 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 568706008679 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 568706008680 Walker A/P-loop; other site 568706008681 ATP binding site [chemical binding]; other site 568706008682 Q-loop/lid; other site 568706008683 ABC transporter signature motif; other site 568706008684 Walker B; other site 568706008685 D-loop; other site 568706008686 H-loop/switch region; other site 568706008687 methionine sulfoxide reductase B; Provisional; Region: PRK00222 568706008688 SelR domain; Region: SelR; pfam01641 568706008689 intracellular septation protein A; Reviewed; Region: PRK00259 568706008690 BolA-like protein; Region: BolA; pfam01722 568706008691 SurA N-terminal domain; Region: SurA_N_3; cl07813 568706008692 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 568706008693 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 568706008694 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 568706008695 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 568706008696 nucleotide binding pocket [chemical binding]; other site 568706008697 K-X-D-G motif; other site 568706008698 catalytic site [active] 568706008699 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 568706008700 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 568706008701 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 568706008702 Dimer interface [polypeptide binding]; other site 568706008703 BRCT sequence motif; other site 568706008704 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 568706008705 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 568706008706 AAA domain; Region: AAA_23; pfam13476 568706008707 Walker A/P-loop; other site 568706008708 ATP binding site [chemical binding]; other site 568706008709 Q-loop/lid; other site 568706008710 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 568706008711 ABC transporter signature motif; other site 568706008712 Walker B; other site 568706008713 D-loop; other site 568706008714 H-loop/switch region; other site 568706008715 lysophospholipid transporter LplT; Provisional; Region: PRK11195 568706008716 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 568706008717 Fe-S cluster binding site [ion binding]; other site 568706008718 active site 568706008719 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 568706008720 Glycoprotease family; Region: Peptidase_M22; pfam00814 568706008721 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 568706008722 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568706008723 Coenzyme A binding pocket [chemical binding]; other site 568706008724 osmolarity response regulator; Provisional; Region: ompR; PRK09468 568706008725 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 568706008726 active site 568706008727 phosphorylation site [posttranslational modification] 568706008728 intermolecular recognition site; other site 568706008729 dimerization interface [polypeptide binding]; other site 568706008730 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 568706008731 DNA binding site [nucleotide binding] 568706008733 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 568706008734 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 568706008735 dimer interface [polypeptide binding]; other site 568706008736 decamer (pentamer of dimers) interface [polypeptide binding]; other site 568706008737 catalytic triad [active] 568706008738 peroxidatic and resolving cysteines [active] 568706008739 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 568706008740 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 568706008741 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 568706008742 Helix-turn-helix domain; Region: HTH_18; pfam12833 568706008743 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568706008745 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706008746 Winged helix-turn helix; Region: HTH_29; pfam13551 568706008747 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706008748 Integrase core domain; Region: rve; pfam00665 568706008749 Integrase core domain; Region: rve_3; pfam13683 568706008750 Transcriptional regulators [Transcription]; Region: FadR; COG2186 568706008751 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706008752 DNA-binding site [nucleotide binding]; DNA binding site 568706008753 FCD domain; Region: FCD; pfam07729 568706008754 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 568706008755 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 568706008756 inhibitor site; inhibition site 568706008757 active site 568706008758 dimer interface [polypeptide binding]; other site 568706008759 catalytic residue [active] 568706008760 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706008761 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 568706008762 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 568706008763 putative ligand binding site [chemical binding]; other site 568706008764 NAD binding site [chemical binding]; other site 568706008765 catalytic site [active] 568706008766 short chain dehydrogenase; Provisional; Region: PRK12744 568706008767 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706008768 NAD(P) binding site [chemical binding]; other site 568706008769 active site 568706008770 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706008771 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706008772 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 568706008773 putative effector binding pocket; other site 568706008774 putative dimerization interface [polypeptide binding]; other site 568706008775 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 568706008776 acetylornithine aminotransferase; Provisional; Region: PRK02627 568706008777 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 568706008778 inhibitor-cofactor binding pocket; inhibition site 568706008779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706008780 catalytic residue [active] 568706008781 ornithine carbamoyltransferase; Provisional; Region: PRK00779 568706008782 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 568706008783 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 568706008784 argininosuccinate synthase; Validated; Region: PRK05370 568706008785 argininosuccinate synthase; Provisional; Region: PRK13820 568706008786 K+ potassium transporter; Region: K_trans; cl15781 568706008787 potassium uptake protein; Region: kup; TIGR00794 568706008788 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 568706008789 dimer interface [polypeptide binding]; other site 568706008790 phosphorylation site [posttranslational modification] 568706008791 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 568706008792 ATP binding site [chemical binding]; other site 568706008793 Mg2+ binding site [ion binding]; other site 568706008794 G-X-G motif; other site 568706008795 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568706008796 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 568706008797 active site 568706008798 phosphorylation site [posttranslational modification] 568706008799 intermolecular recognition site; other site 568706008800 dimerization interface [polypeptide binding]; other site 568706008801 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 568706008802 DNA binding site [nucleotide binding] 568706008803 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 568706008804 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 568706008805 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 568706008806 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 568706008807 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 568706008808 IHF dimer interface [polypeptide binding]; other site 568706008809 IHF - DNA interface [nucleotide binding]; other site 568706008810 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 568706008811 hypothetical protein; Provisional; Region: PRK05939 568706008812 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 568706008813 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568706008814 catalytic residue [active] 568706008815 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 568706008816 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 568706008817 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 568706008818 ribonuclease R; Region: RNase_R; TIGR02063 568706008819 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 568706008820 RNA binding site [nucleotide binding]; other site 568706008821 RNB domain; Region: RNB; pfam00773 568706008822 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 568706008823 RNA binding site [nucleotide binding]; other site 568706008824 DTW domain; Region: DTW; cl01221 568706008825 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 568706008826 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568706008827 Coenzyme A binding pocket [chemical binding]; other site 568706008828 Predicted permeases [General function prediction only]; Region: COG0679 568706008829 Predicted transporter component [General function prediction only]; Region: COG2391 568706008830 Sulphur transport; Region: Sulf_transp; pfam04143 568706008831 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 568706008832 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 568706008833 active site 568706008834 FMN binding site [chemical binding]; other site 568706008835 substrate binding site [chemical binding]; other site 568706008836 3Fe-4S cluster binding site [ion binding]; other site 568706008837 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706008838 Winged helix-turn helix; Region: HTH_29; pfam13551 568706008839 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706008840 Integrase core domain; Region: rve; pfam00665 568706008841 Integrase core domain; Region: rve_3; pfam13683 568706008842 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706008843 Winged helix-turn helix; Region: HTH_29; pfam13551 568706008844 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706008845 Integrase core domain; Region: rve; pfam00665 568706008846 Integrase core domain; Region: rve_3; pfam13683 568706008847 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 568706008848 PLD-like domain; Region: PLDc_2; pfam13091 568706008849 putative active site [active] 568706008850 catalytic site [active] 568706008851 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 568706008852 PLD-like domain; Region: PLDc_2; pfam13091 568706008853 putative active site [active] 568706008854 catalytic site [active] 568706008855 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 568706008856 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 568706008858 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 568706008859 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568706008860 Zn2+ binding site [ion binding]; other site 568706008861 Mg2+ binding site [ion binding]; other site 568706008862 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 568706008863 heme-binding site [chemical binding]; other site 568706008864 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 568706008865 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 568706008866 metal binding site [ion binding]; metal-binding site 568706008867 active site 568706008868 I-site; other site 568706008869 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 568706008870 Isochorismatase family; Region: Isochorismatase; pfam00857 568706008871 catalytic triad [active] 568706008872 metal binding site [ion binding]; metal-binding site 568706008873 conserved cis-peptide bond; other site 568706008874 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706008875 Winged helix-turn helix; Region: HTH_29; pfam13551 568706008876 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706008877 Integrase core domain; Region: rve; pfam00665 568706008878 Integrase core domain; Region: rve_3; pfam13683 568706008879 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 568706008881 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 568706008882 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 568706008883 Imelysin; Region: Peptidase_M75; cl09159 568706008884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 568706008885 Predicted flavoprotein [General function prediction only]; Region: COG0431 568706008886 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 568706008887 Dodecin; Region: Dodecin; pfam07311 568706008888 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 568706008889 MutS domain I; Region: MutS_I; pfam01624 568706008890 MutS domain II; Region: MutS_II; pfam05188 568706008891 MutS domain III; Region: MutS_III; pfam05192 568706008892 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 568706008893 Walker A/P-loop; other site 568706008894 ATP binding site [chemical binding]; other site 568706008895 Q-loop/lid; other site 568706008896 ABC transporter signature motif; other site 568706008897 Walker B; other site 568706008898 D-loop; other site 568706008899 H-loop/switch region; other site 568706008900 Cupin superfamily protein; Region: Cupin_4; pfam08007 568706008901 Cupin-like domain; Region: Cupin_8; pfam13621 568706008902 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 568706008903 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 568706008904 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 568706008905 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 568706008906 dihydrodipicolinate synthase; Region: dapA; TIGR00674 568706008907 dimer interface [polypeptide binding]; other site 568706008908 active site 568706008909 catalytic residue [active] 568706008911 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706008912 Winged helix-turn helix; Region: HTH_29; pfam13551 568706008913 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706008914 Integrase core domain; Region: rve; pfam00665 568706008915 Integrase core domain; Region: rve_3; pfam13683 568706008916 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 568706008917 Predicted metalloprotease [General function prediction only]; Region: COG2321 568706008918 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 568706008920 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706008921 Winged helix-turn helix; Region: HTH_29; pfam13551 568706008922 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706008923 Integrase core domain; Region: rve; pfam00665 568706008924 Integrase core domain; Region: rve_3; pfam13683 568706008926 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568706008927 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568706008928 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706008929 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568706008930 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 568706008931 DNA binding site [nucleotide binding] 568706008935 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706008936 Winged helix-turn helix; Region: HTH_29; pfam13551 568706008937 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706008938 Integrase core domain; Region: rve; pfam00665 568706008939 Integrase core domain; Region: rve_3; pfam13683 568706008940 Predicted ATPase [General function prediction only]; Region: COG4637 568706008941 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706008942 Walker A/P-loop; other site 568706008943 ATP binding site [chemical binding]; other site 568706008944 Q-loop/lid; other site 568706008945 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 568706008946 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 568706008947 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 568706008948 DNA methylase; Region: N6_N4_Mtase; pfam01555 568706008949 DNA methylase; Region: N6_N4_Mtase; cl17433 568706008951 Fic family protein [Function unknown]; Region: COG3177 568706008952 Fic/DOC family; Region: Fic; pfam02661 568706008953 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 568706008954 active site 568706008955 Int/Topo IB signature motif; other site 568706008956 GTP-binding protein YchF; Reviewed; Region: PRK09601 568706008957 YchF GTPase; Region: YchF; cd01900 568706008958 G1 box; other site 568706008959 GTP/Mg2+ binding site [chemical binding]; other site 568706008960 Switch I region; other site 568706008961 G2 box; other site 568706008962 Switch II region; other site 568706008963 G3 box; other site 568706008964 G4 box; other site 568706008965 G5 box; other site 568706008966 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 568706008967 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 568706008968 putative active site [active] 568706008969 catalytic residue [active] 568706008970 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 568706008971 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 568706008972 5S rRNA interface [nucleotide binding]; other site 568706008973 CTC domain interface [polypeptide binding]; other site 568706008974 L16 interface [polypeptide binding]; other site 568706008975 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 568706008976 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 568706008977 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 568706008978 active site 568706008979 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 568706008980 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 568706008981 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 568706008982 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 568706008983 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 568706008984 TPR repeat; Region: TPR_11; pfam13414 568706008985 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 568706008986 binding surface 568706008987 TPR motif; other site 568706008988 TPR repeat; Region: TPR_11; pfam13414 568706008989 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 568706008990 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 568706008991 DNA binding site [nucleotide binding] 568706008992 catalytic residue [active] 568706008993 H2TH interface [polypeptide binding]; other site 568706008994 putative catalytic residues [active] 568706008995 turnover-facilitating residue; other site 568706008996 intercalation triad [nucleotide binding]; other site 568706008997 8OG recognition residue [nucleotide binding]; other site 568706008998 putative reading head residues; other site 568706008999 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 568706009000 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 568706009001 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 568706009002 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 568706009003 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 568706009004 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 568706009005 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 568706009006 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 568706009007 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706009008 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 568706009009 substrate binding pocket [chemical binding]; other site 568706009010 dimerization interface [polypeptide binding]; other site 568706009011 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 568706009012 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 568706009013 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 568706009014 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 568706009015 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 568706009016 Sulfatase; Region: Sulfatase; pfam00884 568706009017 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 568706009018 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 568706009019 dimer interface [polypeptide binding]; other site 568706009020 phosphorylation site [posttranslational modification] 568706009021 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 568706009022 ATP binding site [chemical binding]; other site 568706009023 Mg2+ binding site [ion binding]; other site 568706009024 G-X-G motif; other site 568706009025 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568706009026 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 568706009027 active site 568706009028 phosphorylation site [posttranslational modification] 568706009029 intermolecular recognition site; other site 568706009030 dimerization interface [polypeptide binding]; other site 568706009031 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 568706009032 DNA binding site [nucleotide binding] 568706009033 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 568706009034 FAD binding domain; Region: FAD_binding_4; pfam01565 568706009035 ATP-grasp domain; Region: ATP-grasp_4; cl17255 568706009036 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 568706009037 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 568706009038 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 568706009039 active site 568706009040 substrate binding site [chemical binding]; other site 568706009041 metal binding site [ion binding]; metal-binding site 568706009042 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 568706009043 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 568706009044 active site 568706009045 dimer interface [polypeptide binding]; other site 568706009046 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 568706009047 dimer interface [polypeptide binding]; other site 568706009048 active site 568706009049 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 568706009050 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 568706009051 putative ADP-binding pocket [chemical binding]; other site 568706009052 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 568706009053 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 568706009054 putative ADP-binding pocket [chemical binding]; other site 568706009055 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 568706009056 putative ADP-binding pocket [chemical binding]; other site 568706009057 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 568706009058 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 568706009059 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 568706009060 active site 568706009061 dimer interface [polypeptide binding]; other site 568706009062 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 568706009063 Ligand Binding Site [chemical binding]; other site 568706009064 Molecular Tunnel; other site 568706009065 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 568706009066 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 568706009067 putative ADP-binding pocket [chemical binding]; other site 568706009068 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 568706009069 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 568706009070 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 568706009071 NAD binding site [chemical binding]; other site 568706009072 substrate binding site [chemical binding]; other site 568706009073 homodimer interface [polypeptide binding]; other site 568706009074 active site 568706009075 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 568706009076 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 568706009077 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 568706009078 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 568706009079 Mg++ binding site [ion binding]; other site 568706009080 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 568706009081 putative catalytic motif [active] 568706009082 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 568706009083 diiron binding motif [ion binding]; other site 568706009084 OsmC-like protein; Region: OsmC; cl00767 568706009085 thymidylate synthase; Provisional; Region: thyA; PRK13821 568706009086 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 568706009087 dimerization interface [polypeptide binding]; other site 568706009088 active site 568706009089 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 568706009090 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 568706009091 folate binding site [chemical binding]; other site 568706009092 NADP+ binding site [chemical binding]; other site 568706009093 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706009094 DNA-binding site [nucleotide binding]; DNA binding site 568706009095 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 568706009096 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 568706009097 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706009098 homodimer interface [polypeptide binding]; other site 568706009099 catalytic residue [active] 568706009100 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 568706009101 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 568706009102 inhibitor-cofactor binding pocket; inhibition site 568706009103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706009104 catalytic residue [active] 568706009105 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 568706009106 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 568706009107 tetrameric interface [polypeptide binding]; other site 568706009108 NAD binding site [chemical binding]; other site 568706009109 catalytic residues [active] 568706009110 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 568706009111 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 568706009112 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 568706009113 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706009114 dimer interface [polypeptide binding]; other site 568706009115 conserved gate region; other site 568706009116 putative PBP binding loops; other site 568706009117 ABC-ATPase subunit interface; other site 568706009118 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 568706009119 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706009120 dimer interface [polypeptide binding]; other site 568706009121 conserved gate region; other site 568706009122 putative PBP binding loops; other site 568706009123 ABC-ATPase subunit interface; other site 568706009125 Uncharacterized conserved protein [Function unknown]; Region: COG5476 568706009126 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 568706009127 MlrC C-terminus; Region: MlrC_C; pfam07171 568706009128 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009129 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009130 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009131 Integrase core domain; Region: rve; pfam00665 568706009132 Integrase core domain; Region: rve_3; pfam13683 568706009133 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 568706009134 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 568706009135 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 568706009136 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 568706009137 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 568706009138 Coenzyme A binding pocket [chemical binding]; other site 568706009139 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 568706009140 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 568706009141 HIGH motif; other site 568706009142 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 568706009143 active site 568706009144 KMSKS motif; other site 568706009145 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 568706009146 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 568706009147 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 568706009148 putative DNA binding site [nucleotide binding]; other site 568706009149 putative Zn2+ binding site [ion binding]; other site 568706009150 AsnC family; Region: AsnC_trans_reg; pfam01037 568706009151 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 568706009152 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 568706009153 dimer interface [polypeptide binding]; other site 568706009154 PYR/PP interface [polypeptide binding]; other site 568706009155 TPP binding site [chemical binding]; other site 568706009156 substrate binding site [chemical binding]; other site 568706009157 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 568706009158 TPP-binding site [chemical binding]; other site 568706009159 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 568706009160 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 568706009161 ATP cone domain; Region: ATP-cone; pfam03477 568706009162 ATP cone domain; Region: ATP-cone; pfam03477 568706009163 Class I ribonucleotide reductase; Region: RNR_I; cd01679 568706009164 active site 568706009165 dimer interface [polypeptide binding]; other site 568706009166 catalytic residues [active] 568706009167 effector binding site; other site 568706009168 R2 peptide binding site; other site 568706009169 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 568706009170 dimer interface [polypeptide binding]; other site 568706009171 putative radical transfer pathway; other site 568706009172 diiron center [ion binding]; other site 568706009173 tyrosyl radical; other site 568706009174 YGGT family; Region: YGGT; pfam02325 568706009175 YGGT family; Region: YGGT; pfam02325 568706009176 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 568706009177 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 568706009178 acyl-activating enzyme (AAE) consensus motif; other site 568706009179 AMP binding site [chemical binding]; other site 568706009180 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 568706009181 DltD C-terminal region; Region: DltD_C; pfam04914 568706009182 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 568706009183 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 568706009184 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 568706009185 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 568706009186 substrate binding site [chemical binding]; other site 568706009187 ATP binding site [chemical binding]; other site 568706009188 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 568706009189 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 568706009191 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 568706009192 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 568706009193 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 568706009194 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 568706009195 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 568706009196 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 568706009197 carboxyltransferase (CT) interaction site; other site 568706009198 biotinylation site [posttranslational modification]; other site 568706009199 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 568706009200 Dehydroquinase class II; Region: DHquinase_II; pfam01220 568706009201 trimer interface [polypeptide binding]; other site 568706009202 active site 568706009203 dimer interface [polypeptide binding]; other site 568706009204 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 568706009205 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 568706009206 catalytic residues [active] 568706009207 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 568706009208 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 568706009209 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568706009210 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 568706009211 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 568706009212 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 568706009213 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 568706009214 RNB domain; Region: RNB; pfam00773 568706009215 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 568706009216 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 568706009217 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 568706009218 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 568706009219 shikimate binding site; other site 568706009220 NAD(P) binding site [chemical binding]; other site 568706009221 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009222 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009223 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009224 Integrase core domain; Region: rve; pfam00665 568706009225 Integrase core domain; Region: rve_3; pfam13683 568706009226 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 568706009227 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 568706009228 catalytic motif [active] 568706009229 Zn binding site [ion binding]; other site 568706009230 RibD C-terminal domain; Region: RibD_C; cl17279 568706009231 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 568706009232 catalytic triad [active] 568706009233 conserved cis-peptide bond; other site 568706009235 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 568706009236 ATP cone domain; Region: ATP-cone; pfam03477 568706009237 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 568706009238 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 568706009239 dimer interface [polypeptide binding]; other site 568706009240 active site 568706009241 glycine-pyridoxal phosphate binding site [chemical binding]; other site 568706009242 folate binding site [chemical binding]; other site 568706009243 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 568706009244 substrate binding site [chemical binding]; other site 568706009245 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 568706009246 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 568706009247 active site 568706009248 HIGH motif; other site 568706009249 dimer interface [polypeptide binding]; other site 568706009250 KMSKS motif; other site 568706009251 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 568706009252 RNA binding surface [nucleotide binding]; other site 568706009253 putative peptidase; Provisional; Region: PRK11649 568706009254 Peptidase family M23; Region: Peptidase_M23; pfam01551 568706009255 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 568706009256 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 568706009257 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 568706009258 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 568706009259 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 568706009260 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 568706009261 23S rRNA interface [nucleotide binding]; other site 568706009262 L3 interface [polypeptide binding]; other site 568706009264 peptidase PmbA; Provisional; Region: PRK11040 568706009265 hypothetical protein; Provisional; Region: PRK05255 568706009266 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 568706009267 putative hydrolase; Provisional; Region: PRK11460 568706009268 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 568706009269 NMT1/THI5 like; Region: NMT1; pfam09084 568706009270 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 568706009271 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 568706009272 Walker A/P-loop; other site 568706009273 ATP binding site [chemical binding]; other site 568706009274 Q-loop/lid; other site 568706009275 ABC transporter signature motif; other site 568706009276 Walker B; other site 568706009277 D-loop; other site 568706009278 H-loop/switch region; other site 568706009279 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 568706009280 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706009281 dimer interface [polypeptide binding]; other site 568706009282 conserved gate region; other site 568706009283 putative PBP binding loops; other site 568706009284 ABC-ATPase subunit interface; other site 568706009285 Isochorismatase family; Region: Isochorismatase; pfam00857 568706009286 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 568706009287 catalytic triad [active] 568706009288 conserved cis-peptide bond; other site 568706009289 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 568706009290 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 568706009291 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 568706009292 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 568706009293 ATP binding site [chemical binding]; other site 568706009294 Mg++ binding site [ion binding]; other site 568706009295 motif III; other site 568706009296 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 568706009297 nucleotide binding region [chemical binding]; other site 568706009298 ATP-binding site [chemical binding]; other site 568706009299 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 568706009300 putative RNA binding site [nucleotide binding]; other site 568706009301 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706009302 DNA-binding site [nucleotide binding]; DNA binding site 568706009303 Transcriptional regulators [Transcription]; Region: FadR; COG2186 568706009304 FCD domain; Region: FCD; pfam07729 568706009307 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 568706009308 Domain of unknown function DUF20; Region: UPF0118; pfam01594 568706009309 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 568706009310 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 568706009311 Cytochrome C' Region: Cytochrom_C_2; pfam01322 568706009312 adenylosuccinate lyase; Provisional; Region: PRK09285 568706009313 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 568706009314 tetramer interface [polypeptide binding]; other site 568706009315 active site 568706009316 putative glutathione S-transferase; Provisional; Region: PRK10357 568706009317 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 568706009318 putative C-terminal domain interface [polypeptide binding]; other site 568706009319 putative GSH binding site (G-site) [chemical binding]; other site 568706009320 putative dimer interface [polypeptide binding]; other site 568706009321 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 568706009322 dimer interface [polypeptide binding]; other site 568706009323 N-terminal domain interface [polypeptide binding]; other site 568706009324 putative substrate binding pocket (H-site) [chemical binding]; other site 568706009325 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 568706009326 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 568706009327 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 568706009328 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 568706009329 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706009330 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 568706009331 dimerization interface [polypeptide binding]; other site 568706009332 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706009333 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 568706009334 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 568706009335 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 568706009336 ligand binding site [chemical binding]; other site 568706009337 homodimer interface [polypeptide binding]; other site 568706009338 NAD(P) binding site [chemical binding]; other site 568706009339 trimer interface B [polypeptide binding]; other site 568706009340 trimer interface A [polypeptide binding]; other site 568706009342 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 568706009343 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 568706009344 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 568706009345 outer membrane receptor FepA; Provisional; Region: PRK13528 568706009346 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 568706009347 N-terminal plug; other site 568706009348 ligand-binding site [chemical binding]; other site 568706009349 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 568706009350 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 568706009351 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 568706009352 Cysteine-rich domain; Region: CCG; pfam02754 568706009353 Cysteine-rich domain; Region: CCG; pfam02754 568706009354 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 568706009355 FAD binding domain; Region: FAD_binding_4; pfam01565 568706009356 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 568706009357 FAD binding domain; Region: FAD_binding_4; pfam01565 568706009358 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 568706009359 FAD binding domain; Region: FAD_binding_4; pfam01565 568706009361 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009362 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009363 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009364 Integrase core domain; Region: rve; pfam00665 568706009365 Integrase core domain; Region: rve_3; pfam13683 568706009366 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 568706009367 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 568706009368 protease TldD; Provisional; Region: tldD; PRK10735 568706009369 nitrilase; Region: PLN02798 568706009370 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 568706009371 putative active site [active] 568706009372 catalytic triad [active] 568706009373 dimer interface [polypeptide binding]; other site 568706009374 H-NS histone family; Region: Histone_HNS; pfam00816 568706009375 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 568706009376 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009377 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009378 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009379 Integrase core domain; Region: rve; pfam00665 568706009380 Integrase core domain; Region: rve_3; pfam13683 568706009382 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706009383 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 568706009384 enoyl-CoA hydratase; Provisional; Region: PRK08140 568706009385 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 568706009386 substrate binding site [chemical binding]; other site 568706009387 oxyanion hole (OAH) forming residues; other site 568706009388 trimer interface [polypeptide binding]; other site 568706009389 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706009390 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 568706009391 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706009392 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 568706009393 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 568706009394 acyl-activating enzyme (AAE) consensus motif; other site 568706009395 AMP binding site [chemical binding]; other site 568706009396 active site 568706009397 CoA binding site [chemical binding]; other site 568706009398 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706009399 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 568706009400 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 568706009401 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 568706009402 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 568706009403 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 568706009404 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 568706009405 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 568706009406 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 568706009407 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 568706009408 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 568706009409 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 568706009410 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 568706009411 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 568706009412 Autotransporter beta-domain; Region: Autotransporter; pfam03797 568706009413 Predicted small secreted protein [Function unknown]; Region: COG5510 568706009416 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 568706009417 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 568706009418 motif II; other site 568706009419 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 568706009420 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 568706009421 dimer interface [polypeptide binding]; other site 568706009422 active site 568706009423 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 568706009424 substrate binding site [chemical binding]; other site 568706009425 catalytic residue [active] 568706009426 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 568706009427 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 568706009428 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 568706009429 SPFH domain / Band 7 family; Region: Band_7; pfam01145 568706009430 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 568706009431 GSH binding site (G-site) [chemical binding]; other site 568706009432 C-terminal domain interface [polypeptide binding]; other site 568706009433 dimer interface [polypeptide binding]; other site 568706009434 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 568706009435 dimer interface [polypeptide binding]; other site 568706009436 N-terminal domain interface [polypeptide binding]; other site 568706009437 substrate binding pocket (H-site) [chemical binding]; other site 568706009438 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 568706009439 homotrimer interaction site [polypeptide binding]; other site 568706009440 putative active site [active] 568706009441 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009442 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009443 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009444 Integrase core domain; Region: rve; pfam00665 568706009445 Integrase core domain; Region: rve_3; pfam13683 568706009446 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 568706009447 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 568706009448 dimer interface [polypeptide binding]; other site 568706009449 active site 568706009450 catalytic residue [active] 568706009451 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 568706009452 GAF domain; Region: GAF_2; pfam13185 568706009453 aspartate aminotransferase; Provisional; Region: PRK05764 568706009454 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 568706009455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706009456 homodimer interface [polypeptide binding]; other site 568706009457 catalytic residue [active] 568706009458 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 568706009459 UbiA prenyltransferase family; Region: UbiA; pfam01040 568706009460 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 568706009461 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 568706009463 malate synthase G; Provisional; Region: PRK02999 568706009464 active site 568706009465 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568706009466 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568706009467 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 568706009468 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 568706009469 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 568706009470 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 568706009471 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 568706009472 Walker A/P-loop; other site 568706009473 ATP binding site [chemical binding]; other site 568706009474 Q-loop/lid; other site 568706009475 ABC transporter signature motif; other site 568706009476 Walker B; other site 568706009477 D-loop; other site 568706009478 H-loop/switch region; other site 568706009479 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 568706009480 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706009481 dimer interface [polypeptide binding]; other site 568706009482 conserved gate region; other site 568706009483 putative PBP binding loops; other site 568706009484 ABC-ATPase subunit interface; other site 568706009485 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 568706009486 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 568706009487 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 568706009488 membrane-bound complex binding site; other site 568706009489 hinge residues; other site 568706009490 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706009491 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706009492 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 568706009493 dimerization interface [polypeptide binding]; other site 568706009494 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; pfam10707 568706009496 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706009497 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06151 568706009498 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 568706009499 active site 568706009500 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706009501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706009502 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 568706009503 substrate binding pocket [chemical binding]; other site 568706009504 dimerization interface [polypeptide binding]; other site 568706009506 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009507 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009508 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009509 Integrase core domain; Region: rve; pfam00665 568706009510 Integrase core domain; Region: rve_3; pfam13683 568706009511 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706009513 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 568706009514 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 568706009515 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 568706009516 N-terminal plug; other site 568706009517 ligand-binding site [chemical binding]; other site 568706009518 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 568706009519 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 568706009520 dimer interface [polypeptide binding]; other site 568706009521 ssDNA binding site [nucleotide binding]; other site 568706009522 tetramer (dimer of dimers) interface [polypeptide binding]; other site 568706009523 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 568706009524 Major Facilitator Superfamily; Region: MFS_1; pfam07690 568706009525 putative substrate translocation pore; other site 568706009526 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 568706009527 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 568706009528 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 568706009529 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 568706009530 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009531 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009532 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009533 Integrase core domain; Region: rve; pfam00665 568706009534 Integrase core domain; Region: rve_3; pfam13683 568706009535 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 568706009536 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 568706009537 putative C-terminal domain interface [polypeptide binding]; other site 568706009538 putative GSH binding site (G-site) [chemical binding]; other site 568706009539 putative dimer interface [polypeptide binding]; other site 568706009540 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 568706009541 putative substrate binding pocket (H-site) [chemical binding]; other site 568706009542 putative N-terminal domain interface [polypeptide binding]; other site 568706009543 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 568706009544 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568706009545 Zn2+ binding site [ion binding]; other site 568706009546 Mg2+ binding site [ion binding]; other site 568706009547 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 568706009548 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 568706009549 active site 568706009550 dimer interface [polypeptide binding]; other site 568706009551 metal binding site [ion binding]; metal-binding site 568706009552 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 568706009553 shikimate kinase; Reviewed; Region: aroK; PRK00131 568706009554 ADP binding site [chemical binding]; other site 568706009555 magnesium binding site [ion binding]; other site 568706009556 putative shikimate binding site; other site 568706009557 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 568706009558 Transglycosylase; Region: Transgly; pfam00912 568706009559 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 568706009560 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 568706009561 putative iron binding site [ion binding]; other site 568706009562 diaminopimelate decarboxylase; Region: lysA; TIGR01048 568706009563 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 568706009564 active site 568706009565 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 568706009566 substrate binding site [chemical binding]; other site 568706009567 catalytic residues [active] 568706009568 dimer interface [polypeptide binding]; other site 568706009569 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 568706009570 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 568706009571 ResB-like family; Region: ResB; pfam05140 568706009572 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 568706009573 ResB-like family; Region: ResB; pfam05140 568706009574 Cytochrome c; Region: Cytochrom_C; cl11414 568706009575 Cytochrome c; Region: Cytochrom_C; cl11414 568706009576 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 568706009577 G1 box; other site 568706009578 GTP/Mg2+ binding site [chemical binding]; other site 568706009579 Switch I region; other site 568706009580 G2 box; other site 568706009581 G3 box; other site 568706009582 Switch II region; other site 568706009583 G4 box; other site 568706009584 G5 box; other site 568706009585 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 568706009586 dimer interface [polypeptide binding]; other site 568706009587 active site 568706009588 aspartate-rich active site metal binding site; other site 568706009589 allosteric magnesium binding site [ion binding]; other site 568706009590 Schiff base residues; other site 568706009591 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 568706009592 EamA-like transporter family; Region: EamA; pfam00892 568706009593 EamA-like transporter family; Region: EamA; pfam00892 568706009594 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 568706009595 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 568706009596 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 568706009597 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 568706009598 DsbD alpha interface [polypeptide binding]; other site 568706009599 catalytic residues [active] 568706009600 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 568706009601 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 568706009602 nucleotide binding site/active site [active] 568706009603 HIT family signature motif; other site 568706009604 catalytic residue [active] 568706009605 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 568706009606 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 568706009607 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 568706009608 alphaNTD homodimer interface [polypeptide binding]; other site 568706009609 alphaNTD - beta interaction site [polypeptide binding]; other site 568706009610 alphaNTD - beta' interaction site [polypeptide binding]; other site 568706009611 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 568706009612 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 568706009613 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 568706009614 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 568706009615 RNA binding surface [nucleotide binding]; other site 568706009616 30S ribosomal protein S11; Validated; Region: PRK05309 568706009617 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 568706009618 30S ribosomal protein S13; Region: bact_S13; TIGR03631 568706009619 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 568706009620 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 568706009621 rRNA binding site [nucleotide binding]; other site 568706009622 predicted 30S ribosome binding site; other site 568706009623 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 568706009624 SecY translocase; Region: SecY; pfam00344 568706009625 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 568706009626 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 568706009627 23S rRNA binding site [nucleotide binding]; other site 568706009628 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 568706009629 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 568706009630 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 568706009631 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 568706009632 5S rRNA interface [nucleotide binding]; other site 568706009633 L27 interface [polypeptide binding]; other site 568706009634 23S rRNA interface [nucleotide binding]; other site 568706009635 L5 interface [polypeptide binding]; other site 568706009636 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 568706009637 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 568706009638 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 568706009639 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 568706009640 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 568706009641 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 568706009642 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 568706009643 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 568706009644 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 568706009645 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 568706009646 RNA binding site [nucleotide binding]; other site 568706009647 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 568706009648 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 568706009649 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 568706009650 tetramerization interface [polypeptide binding]; other site 568706009651 NAD(P) binding site [chemical binding]; other site 568706009652 catalytic residues [active] 568706009653 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 568706009654 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 568706009655 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 568706009656 23S rRNA interface [nucleotide binding]; other site 568706009657 putative translocon interaction site; other site 568706009658 signal recognition particle (SRP54) interaction site; other site 568706009659 L23 interface [polypeptide binding]; other site 568706009660 trigger factor interaction site; other site 568706009661 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 568706009662 23S rRNA interface [nucleotide binding]; other site 568706009663 5S rRNA interface [nucleotide binding]; other site 568706009664 putative antibiotic binding site [chemical binding]; other site 568706009665 L25 interface [polypeptide binding]; other site 568706009666 L27 interface [polypeptide binding]; other site 568706009667 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 568706009668 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 568706009669 G-X-X-G motif; other site 568706009670 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 568706009671 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 568706009672 putative translocon binding site; other site 568706009673 protein-rRNA interface [nucleotide binding]; other site 568706009674 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 568706009675 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 568706009676 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 568706009677 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 568706009678 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 568706009679 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 568706009680 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 568706009681 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 568706009682 elongation factor Tu; Reviewed; Region: PRK00049 568706009683 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 568706009684 G1 box; other site 568706009685 GEF interaction site [polypeptide binding]; other site 568706009686 GTP/Mg2+ binding site [chemical binding]; other site 568706009687 Switch I region; other site 568706009688 G2 box; other site 568706009689 G3 box; other site 568706009690 Switch II region; other site 568706009691 G4 box; other site 568706009692 G5 box; other site 568706009693 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 568706009694 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 568706009695 Antibiotic Binding Site [chemical binding]; other site 568706009696 elongation factor G; Reviewed; Region: PRK00007 568706009697 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 568706009698 G1 box; other site 568706009699 putative GEF interaction site [polypeptide binding]; other site 568706009700 GTP/Mg2+ binding site [chemical binding]; other site 568706009701 Switch I region; other site 568706009702 G2 box; other site 568706009703 G3 box; other site 568706009704 Switch II region; other site 568706009705 G4 box; other site 568706009706 G5 box; other site 568706009707 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 568706009708 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 568706009709 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 568706009710 30S ribosomal protein S7; Validated; Region: PRK05302 568706009711 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 568706009712 S17 interaction site [polypeptide binding]; other site 568706009713 S8 interaction site; other site 568706009714 16S rRNA interaction site [nucleotide binding]; other site 568706009715 streptomycin interaction site [chemical binding]; other site 568706009716 23S rRNA interaction site [nucleotide binding]; other site 568706009717 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 568706009718 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009719 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009720 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009721 Integrase core domain; Region: rve; pfam00665 568706009722 Integrase core domain; Region: rve_3; pfam13683 568706009723 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 568706009724 putative hydrophobic ligand binding site [chemical binding]; other site 568706009725 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 568706009726 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 568706009727 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 568706009728 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 568706009729 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 568706009730 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 568706009732 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009733 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009734 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009735 Integrase core domain; Region: rve; pfam00665 568706009736 Integrase core domain; Region: rve_3; pfam13683 568706009737 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 568706009738 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706009739 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 568706009740 Flavoprotein; Region: Flavoprotein; pfam02441 568706009741 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 568706009742 putative GSH binding site [chemical binding]; other site 568706009743 catalytic residues [active] 568706009744 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 568706009745 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 568706009746 S-adenosylmethionine binding site [chemical binding]; other site 568706009747 peptide chain release factor 1; Validated; Region: prfA; PRK00591 568706009748 This domain is found in peptide chain release factors; Region: PCRF; smart00937 568706009749 RF-1 domain; Region: RF-1; pfam00472 568706009750 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 568706009751 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 568706009752 tRNA; other site 568706009753 putative tRNA binding site [nucleotide binding]; other site 568706009754 putative NADP binding site [chemical binding]; other site 568706009755 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 568706009756 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009757 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009758 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009759 Integrase core domain; Region: rve; pfam00665 568706009760 Integrase core domain; Region: rve_3; pfam13683 568706009761 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 568706009762 MgtE intracellular N domain; Region: MgtE_N; smart00924 568706009763 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 568706009764 Divalent cation transporter; Region: MgtE; pfam01769 568706009765 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 568706009766 Predicted membrane protein [Function unknown]; Region: COG2855 568706009767 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706009768 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706009769 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 568706009770 putative dimerization interface [polypeptide binding]; other site 568706009771 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568706009772 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 568706009773 metal binding site [ion binding]; metal-binding site 568706009774 putative dimer interface [polypeptide binding]; other site 568706009775 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 568706009776 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 568706009777 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 568706009778 acyl-activating enzyme (AAE) consensus motif; other site 568706009779 putative AMP binding site [chemical binding]; other site 568706009780 putative active site [active] 568706009781 putative CoA binding site [chemical binding]; other site 568706009782 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009783 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009784 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009785 Integrase core domain; Region: rve; pfam00665 568706009786 Integrase core domain; Region: rve_3; pfam13683 568706009787 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009788 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009789 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 568706009790 Integrase core domain; Region: rve; pfam00665 568706009791 Integrase core domain; Region: rve_3; pfam13683 568706009792 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 568706009793 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 568706009794 active site 568706009795 dimerization interface [polypeptide binding]; other site 568706009797 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 568706009798 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 568706009799 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 568706009800 active site 568706009801 catalytic site [active] 568706009802 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 568706009803 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 568706009804 Walker A/P-loop; other site 568706009805 ATP binding site [chemical binding]; other site 568706009806 Q-loop/lid; other site 568706009807 ABC transporter signature motif; other site 568706009808 Walker B; other site 568706009809 D-loop; other site 568706009810 H-loop/switch region; other site 568706009811 NIL domain; Region: NIL; pfam09383 568706009812 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706009813 ABC-ATPase subunit interface; other site 568706009814 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 568706009815 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 568706009816 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 568706009817 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 568706009818 putative active site [active] 568706009819 metal binding site [ion binding]; metal-binding site 568706009820 Uncharacterized conserved protein [Function unknown]; Region: COG1359 568706009821 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 568706009822 substrate binding site [chemical binding]; other site 568706009824 Transcriptional regulators [Transcription]; Region: FadR; COG2186 568706009825 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706009826 DNA-binding site [nucleotide binding]; DNA binding site 568706009827 FCD domain; Region: FCD; pfam07729 568706009828 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706009829 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009830 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009831 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009832 Integrase core domain; Region: rve; pfam00665 568706009833 Integrase core domain; Region: rve_3; pfam13683 568706009835 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706009836 dimer interface [polypeptide binding]; other site 568706009837 conserved gate region; other site 568706009838 putative PBP binding loops; other site 568706009839 ABC-ATPase subunit interface; other site 568706009840 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 568706009841 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706009842 dimer interface [polypeptide binding]; other site 568706009843 conserved gate region; other site 568706009844 putative PBP binding loops; other site 568706009845 ABC-ATPase subunit interface; other site 568706009846 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 568706009847 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706009848 Walker A/P-loop; other site 568706009849 ATP binding site [chemical binding]; other site 568706009850 Q-loop/lid; other site 568706009851 ABC transporter signature motif; other site 568706009852 Walker B; other site 568706009853 D-loop; other site 568706009854 H-loop/switch region; other site 568706009855 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 568706009856 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 568706009857 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 568706009858 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 568706009859 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 568706009860 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706009861 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 568706009862 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 568706009863 DNA binding residues [nucleotide binding] 568706009864 dimer interface [polypeptide binding]; other site 568706009865 [2Fe-2S] cluster binding site [ion binding]; other site 568706009866 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 568706009867 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 568706009868 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 568706009869 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 568706009870 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 568706009871 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 568706009872 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706009873 NAD(P) binding site [chemical binding]; other site 568706009874 active site 568706009879 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009880 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009881 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009882 Integrase core domain; Region: rve; pfam00665 568706009883 Integrase core domain; Region: rve_3; pfam13683 568706009885 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009886 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009887 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009888 Integrase core domain; Region: rve; pfam00665 568706009889 Integrase core domain; Region: rve_3; pfam13683 568706009890 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 568706009891 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 568706009892 Walker A/P-loop; other site 568706009893 ATP binding site [chemical binding]; other site 568706009894 Q-loop/lid; other site 568706009895 ABC transporter signature motif; other site 568706009896 Walker B; other site 568706009897 D-loop; other site 568706009898 H-loop/switch region; other site 568706009900 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 568706009901 CoenzymeA binding site [chemical binding]; other site 568706009902 subunit interaction site [polypeptide binding]; other site 568706009903 PHB binding site; other site 568706009904 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 568706009905 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 568706009906 NAD(P) binding site [chemical binding]; other site 568706009907 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 568706009908 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 568706009909 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009910 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009911 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009912 Integrase core domain; Region: rve; pfam00665 568706009913 Integrase core domain; Region: rve_3; pfam13683 568706009914 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 568706009915 metal-binding site [ion binding] 568706009916 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 568706009917 metal-binding site [ion binding] 568706009918 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 568706009919 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 568706009920 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 568706009921 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 568706009922 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 568706009923 Zn2+ binding site [ion binding]; other site 568706009924 Mg2+ binding site [ion binding]; other site 568706009925 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 568706009926 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 568706009927 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706009928 homodimer interface [polypeptide binding]; other site 568706009929 catalytic residue [active] 568706009930 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009931 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009932 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009933 Integrase core domain; Region: rve; pfam00665 568706009934 Integrase core domain; Region: rve_3; pfam13683 568706009935 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706009936 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706009937 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 568706009938 dimerization interface [polypeptide binding]; other site 568706009939 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 568706009940 active site 568706009941 oligomerization interface [polypeptide binding]; other site 568706009942 metal binding site [ion binding]; metal-binding site 568706009943 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 568706009944 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 568706009945 trimer interface [polypeptide binding]; other site 568706009946 eyelet of channel; other site 568706009947 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009948 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009949 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009950 Integrase core domain; Region: rve; pfam00665 568706009951 Integrase core domain; Region: rve_3; pfam13683 568706009952 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 568706009953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706009954 NAD(P) binding site [chemical binding]; other site 568706009955 active site 568706009956 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 568706009957 classical (c) SDRs; Region: SDR_c; cd05233 568706009958 NAD(P) binding site [chemical binding]; other site 568706009959 active site 568706009960 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 568706009961 metabolite-proton symporter; Region: 2A0106; TIGR00883 568706009962 putative substrate translocation pore; other site 568706009963 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 568706009964 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 568706009965 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706009966 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706009967 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 568706009968 dimerization interface [polypeptide binding]; other site 568706009969 substrate binding pocket [chemical binding]; other site 568706009970 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706009971 Winged helix-turn helix; Region: HTH_29; pfam13551 568706009972 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706009973 Integrase core domain; Region: rve; pfam00665 568706009974 Integrase core domain; Region: rve_3; pfam13683 568706009975 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 568706009976 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706009977 dimer interface [polypeptide binding]; other site 568706009978 conserved gate region; other site 568706009979 putative PBP binding loops; other site 568706009980 ABC-ATPase subunit interface; other site 568706009981 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 568706009982 putative active site [active] 568706009983 Zn binding site [ion binding]; other site 568706009984 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 568706009985 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 568706009986 acyl-activating enzyme (AAE) consensus motif; other site 568706009987 AMP binding site [chemical binding]; other site 568706009988 active site 568706009989 CoA binding site [chemical binding]; other site 568706009990 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 568706009991 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 568706009992 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 568706009993 putative DNA binding site [nucleotide binding]; other site 568706009994 putative Zn2+ binding site [ion binding]; other site 568706009995 AsnC family; Region: AsnC_trans_reg; pfam01037 568706009996 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706009997 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 568706009998 Lumazine binding domain; Region: Lum_binding; pfam00677 568706009999 Lumazine binding domain; Region: Lum_binding; pfam00677 568706010000 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 568706010001 Amidase; Region: Amidase; cl11426 568706010002 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706010003 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 568706010004 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706010005 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 568706010006 dimerization interface [polypeptide binding]; other site 568706010007 substrate binding pocket [chemical binding]; other site 568706010008 putative cyanate transporter; Provisional; Region: cynX; PRK09705 568706010009 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 568706010010 nucleoside/Zn binding site; other site 568706010011 dimer interface [polypeptide binding]; other site 568706010012 catalytic motif [active] 568706010013 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 568706010014 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 568706010015 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 568706010016 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706010017 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 568706010018 dimerization interface [polypeptide binding]; other site 568706010019 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010020 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010021 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010022 Integrase core domain; Region: rve; pfam00665 568706010023 Integrase core domain; Region: rve_3; pfam13683 568706010024 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 568706010025 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 568706010026 active site 568706010027 FMN binding site [chemical binding]; other site 568706010028 substrate binding site [chemical binding]; other site 568706010029 homotetramer interface [polypeptide binding]; other site 568706010030 catalytic residue [active] 568706010031 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 568706010032 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 568706010033 Walker A/P-loop; other site 568706010034 ATP binding site [chemical binding]; other site 568706010035 Q-loop/lid; other site 568706010036 ABC transporter signature motif; other site 568706010037 Walker B; other site 568706010038 D-loop; other site 568706010039 H-loop/switch region; other site 568706010041 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 568706010042 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 568706010043 TM-ABC transporter signature motif; other site 568706010044 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 568706010045 TM-ABC transporter signature motif; other site 568706010046 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 568706010047 homotrimer interaction site [polypeptide binding]; other site 568706010048 putative active site [active] 568706010049 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 568706010050 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 568706010051 acyl-activating enzyme (AAE) consensus motif; other site 568706010052 AMP binding site [chemical binding]; other site 568706010053 active site 568706010054 CoA binding site [chemical binding]; other site 568706010055 (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 568706010056 active site 568706010057 catalytic site [active] 568706010059 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706010060 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 568706010061 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706010062 short chain dehydrogenase; Provisional; Region: PRK06125 568706010063 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706010064 NAD(P) binding site [chemical binding]; other site 568706010065 active site 568706010066 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 568706010067 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 568706010068 putative active site [active] 568706010069 putative catalytic site [active] 568706010070 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 568706010071 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 568706010072 Walker A/P-loop; other site 568706010073 ATP binding site [chemical binding]; other site 568706010074 Q-loop/lid; other site 568706010075 ABC transporter signature motif; other site 568706010076 Walker B; other site 568706010077 D-loop; other site 568706010078 H-loop/switch region; other site 568706010079 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 568706010080 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706010081 dimer interface [polypeptide binding]; other site 568706010082 conserved gate region; other site 568706010083 putative PBP binding loops; other site 568706010084 ABC-ATPase subunit interface; other site 568706010086 enoyl-CoA hydratase; Provisional; Region: PRK06127 568706010087 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 568706010088 substrate binding site [chemical binding]; other site 568706010089 oxyanion hole (OAH) forming residues; other site 568706010090 trimer interface [polypeptide binding]; other site 568706010091 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568706010092 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568706010094 Transcriptional regulators [Transcription]; Region: FadR; COG2186 568706010095 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706010096 DNA-binding site [nucleotide binding]; DNA binding site 568706010097 FCD domain; Region: FCD; pfam07729 568706010098 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010099 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010100 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010101 Integrase core domain; Region: rve; pfam00665 568706010102 Integrase core domain; Region: rve_3; pfam13683 568706010103 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 568706010104 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 568706010105 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 568706010106 putative active site pocket [active] 568706010107 dimerization interface [polypeptide binding]; other site 568706010108 putative catalytic residue [active] 568706010109 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 568706010110 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 568706010111 putative DNA binding site [nucleotide binding]; other site 568706010112 putative Zn2+ binding site [ion binding]; other site 568706010113 AsnC family; Region: AsnC_trans_reg; pfam01037 568706010114 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 568706010115 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 568706010116 short chain dehydrogenase; Provisional; Region: PRK08339 568706010117 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 568706010118 putative NAD(P) binding site [chemical binding]; other site 568706010119 putative active site [active] 568706010120 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 568706010121 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706010122 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 568706010123 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 568706010124 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 568706010125 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 568706010126 nucleotide binding region [chemical binding]; other site 568706010127 ATP-binding site [chemical binding]; other site 568706010128 SEC-C motif; Region: SEC-C; pfam02810 568706010129 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 568706010130 Peptidase family M23; Region: Peptidase_M23; pfam01551 568706010131 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 568706010132 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 568706010133 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 568706010134 cell division protein FtsZ; Validated; Region: PRK09330 568706010135 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 568706010136 nucleotide binding site [chemical binding]; other site 568706010137 SulA interaction site; other site 568706010138 cell division protein FtsA; Region: ftsA; TIGR01174 568706010139 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 568706010140 nucleotide binding site [chemical binding]; other site 568706010141 Cell division protein FtsA; Region: FtsA; pfam14450 568706010142 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 568706010143 Cell division protein FtsQ; Region: FtsQ; pfam03799 568706010144 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 568706010145 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 568706010146 ATP-grasp domain; Region: ATP-grasp_4; cl17255 568706010147 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 568706010148 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 568706010149 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568706010150 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 568706010151 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 568706010152 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 568706010153 active site 568706010154 homodimer interface [polypeptide binding]; other site 568706010155 cell division protein FtsW; Region: ftsW; TIGR02614 568706010156 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 568706010157 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568706010158 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 568706010159 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 568706010160 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 568706010161 Mg++ binding site [ion binding]; other site 568706010162 putative catalytic motif [active] 568706010163 putative substrate binding site [chemical binding]; other site 568706010164 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional; Region: PRK11929 568706010165 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 568706010166 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568706010167 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 568706010168 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 568706010169 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 568706010170 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 568706010171 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 568706010172 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 568706010173 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 568706010174 Cell division protein FtsL; Region: FtsL; cl11433 568706010175 MraW methylase family; Region: Methyltransf_5; cl17771 568706010176 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 568706010177 cell division protein MraZ; Reviewed; Region: PRK00326 568706010178 MraZ protein; Region: MraZ; pfam02381 568706010179 MraZ protein; Region: MraZ; pfam02381 568706010180 ABC transporter ATPase component; Reviewed; Region: PRK11147 568706010181 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 568706010182 ABC transporter; Region: ABC_tran_2; pfam12848 568706010183 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 568706010184 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 568706010185 active site 568706010186 substrate binding pocket [chemical binding]; other site 568706010187 dimer interface [polypeptide binding]; other site 568706010188 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568706010189 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 568706010190 metal binding site [ion binding]; metal-binding site 568706010191 putative dimer interface [polypeptide binding]; other site 568706010192 SWI complex, BAF60b domains; Region: SWIB; smart00151 568706010193 Predicted membrane protein [Function unknown]; Region: COG3671 568706010194 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 568706010195 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 568706010196 dimerization interface [polypeptide binding]; other site 568706010197 putative DNA binding site [nucleotide binding]; other site 568706010198 putative Zn2+ binding site [ion binding]; other site 568706010199 AsnC family; Region: AsnC_trans_reg; pfam01037 568706010200 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 568706010201 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 568706010202 dimer interface [polypeptide binding]; other site 568706010203 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 568706010204 active site 568706010205 Fe binding site [ion binding]; other site 568706010206 methionine sulfoxide reductase A; Provisional; Region: PRK14054 568706010207 Cytochrome c; Region: Cytochrom_C; cl11414 568706010208 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 568706010209 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 568706010211 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010212 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010213 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010214 Integrase core domain; Region: rve; pfam00665 568706010215 Integrase core domain; Region: rve_3; pfam13683 568706010216 Cell division protein ZapA; Region: ZapA; pfam05164 568706010217 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010218 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010219 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010220 Integrase core domain; Region: rve; pfam00665 568706010221 Integrase core domain; Region: rve_3; pfam13683 568706010222 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 568706010223 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 568706010224 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 568706010225 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 568706010226 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 568706010227 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 568706010229 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010230 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010231 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010232 Integrase core domain; Region: rve; pfam00665 568706010233 Integrase core domain; Region: rve_3; pfam13683 568706010234 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 568706010235 ligand binding site [chemical binding]; other site 568706010236 active site 568706010237 UGI interface [polypeptide binding]; other site 568706010238 catalytic site [active] 568706010239 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 568706010240 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 568706010241 ATP binding site [chemical binding]; other site 568706010242 Mg++ binding site [ion binding]; other site 568706010243 motif III; other site 568706010244 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 568706010245 nucleotide binding region [chemical binding]; other site 568706010246 ATP-binding site [chemical binding]; other site 568706010247 Uncharacterized conserved protein [Function unknown]; Region: COG1565 568706010248 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13297 568706010249 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 568706010250 active site 568706010251 NTP binding site [chemical binding]; other site 568706010252 metal binding triad [ion binding]; metal-binding site 568706010253 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 568706010254 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 568706010255 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 568706010256 N-acetyl-D-glucosamine binding site [chemical binding]; other site 568706010257 catalytic residue [active] 568706010258 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 568706010259 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 568706010260 metabolite-proton symporter; Region: 2A0106; TIGR00883 568706010261 putative substrate translocation pore; other site 568706010262 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 568706010263 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 568706010264 active site 568706010265 Zn binding site [ion binding]; other site 568706010266 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706010267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706010268 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 568706010269 dimerization interface [polypeptide binding]; other site 568706010270 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010271 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010272 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010273 Integrase core domain; Region: rve; pfam00665 568706010274 Integrase core domain; Region: rve_3; pfam13683 568706010275 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 568706010276 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 568706010277 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 568706010278 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 568706010279 Walker A motif; other site 568706010280 ATP binding site [chemical binding]; other site 568706010281 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 568706010282 Walker B motif; other site 568706010283 arginine finger; other site 568706010284 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 568706010285 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010286 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010287 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010288 Integrase core domain; Region: rve; pfam00665 568706010289 Integrase core domain; Region: rve_3; pfam13683 568706010291 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 568706010292 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 568706010293 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 568706010294 P-loop, Walker A motif; other site 568706010295 Base recognition motif; other site 568706010296 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 568706010297 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 568706010298 metal binding site 2 [ion binding]; metal-binding site 568706010299 putative DNA binding helix; other site 568706010300 metal binding site 1 [ion binding]; metal-binding site 568706010301 dimer interface [polypeptide binding]; other site 568706010302 structural Zn2+ binding site [ion binding]; other site 568706010303 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 568706010304 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 568706010305 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 568706010306 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 568706010307 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 568706010308 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 568706010309 metal binding site [ion binding]; metal-binding site 568706010310 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 568706010311 High-affinity nickel-transport protein; Region: NicO; cl00964 568706010312 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 568706010313 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 568706010314 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 568706010315 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 568706010316 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 568706010317 active site 568706010318 DNA binding site [nucleotide binding] 568706010319 Int/Topo IB signature motif; other site 568706010320 Protein of unknown function, DUF484; Region: DUF484; cl17449 568706010321 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 568706010322 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 568706010323 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 568706010324 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 568706010325 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 568706010326 putative acyl-acceptor binding pocket; other site 568706010327 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 568706010328 putative acyl-acceptor binding pocket; other site 568706010329 S-adenosylmethionine synthetase; Validated; Region: PRK05250 568706010330 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 568706010331 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 568706010332 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 568706010333 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 568706010334 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 568706010335 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 568706010336 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 568706010337 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 568706010338 homotetramer interface [polypeptide binding]; other site 568706010339 ligand binding site [chemical binding]; other site 568706010340 catalytic site [active] 568706010341 NAD binding site [chemical binding]; other site 568706010342 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 568706010343 FAD binding site [chemical binding]; other site 568706010344 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010345 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010346 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010347 Integrase core domain; Region: rve; pfam00665 568706010348 Integrase core domain; Region: rve_3; pfam13683 568706010349 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 568706010350 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 568706010351 substrate binding pocket [chemical binding]; other site 568706010352 membrane-bound complex binding site; other site 568706010353 hinge residues; other site 568706010354 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706010355 dimer interface [polypeptide binding]; other site 568706010356 conserved gate region; other site 568706010357 putative PBP binding loops; other site 568706010358 ABC-ATPase subunit interface; other site 568706010359 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 568706010360 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706010361 dimer interface [polypeptide binding]; other site 568706010362 conserved gate region; other site 568706010363 putative PBP binding loops; other site 568706010364 ABC-ATPase subunit interface; other site 568706010366 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 568706010367 aspartate racemase; Region: asp_race; TIGR00035 568706010368 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 568706010369 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 568706010370 trimer interface [polypeptide binding]; other site 568706010371 eyelet of channel; other site 568706010372 muropeptide transporter; Reviewed; Region: ampG; PRK11902 568706010373 muropeptide transporter; Validated; Region: ampG; cl17669 568706010374 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010375 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010376 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010377 Integrase core domain; Region: rve; pfam00665 568706010378 Integrase core domain; Region: rve_3; pfam13683 568706010379 methionine biosynthesis protein MetW; Region: metW; TIGR02081 568706010380 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 568706010381 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 568706010384 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 568706010385 DNA binding residues [nucleotide binding] 568706010388 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 568706010389 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 568706010390 catalytic residues [active] 568706010391 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568706010392 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568706010393 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706010394 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568706010395 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568706010396 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 568706010398 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706010399 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 568706010400 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706010401 thioredoxin reductase; Provisional; Region: PRK10262 568706010402 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 568706010403 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568706010404 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010405 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010406 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010407 Integrase core domain; Region: rve; pfam00665 568706010408 Integrase core domain; Region: rve_3; pfam13683 568706010409 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 568706010410 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 568706010411 active site 568706010412 metal binding site [ion binding]; metal-binding site 568706010413 hexamer interface [polypeptide binding]; other site 568706010414 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 568706010415 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706010416 Walker A/P-loop; other site 568706010417 ATP binding site [chemical binding]; other site 568706010418 Q-loop/lid; other site 568706010419 ABC transporter signature motif; other site 568706010420 Walker B; other site 568706010421 D-loop; other site 568706010422 H-loop/switch region; other site 568706010423 TOBE domain; Region: TOBE_2; pfam08402 568706010424 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 568706010425 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 568706010426 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706010427 dimer interface [polypeptide binding]; other site 568706010428 conserved gate region; other site 568706010429 putative PBP binding loops; other site 568706010430 ABC-ATPase subunit interface; other site 568706010431 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 568706010432 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706010433 dimer interface [polypeptide binding]; other site 568706010434 conserved gate region; other site 568706010435 putative PBP binding loops; other site 568706010436 ABC-ATPase subunit interface; other site 568706010437 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706010438 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706010439 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706010440 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 568706010441 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 568706010442 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 568706010443 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 568706010444 active site 568706010445 HIGH motif; other site 568706010446 KMSK motif region; other site 568706010447 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 568706010448 tRNA binding surface [nucleotide binding]; other site 568706010449 anticodon binding site; other site 568706010450 Sporulation related domain; Region: SPOR; pfam05036 568706010451 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 568706010452 catalytic residues [active] 568706010453 hinge region; other site 568706010454 alpha helical domain; other site 568706010455 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 568706010456 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 568706010457 homodimer interface [polypeptide binding]; other site 568706010458 substrate-cofactor binding pocket; other site 568706010459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706010460 catalytic residue [active] 568706010462 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010463 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010464 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010465 Integrase core domain; Region: rve; pfam00665 568706010466 Integrase core domain; Region: rve_3; pfam13683 568706010467 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 568706010468 non-specific DNA binding site [nucleotide binding]; other site 568706010469 salt bridge; other site 568706010470 sequence-specific DNA binding site [nucleotide binding]; other site 568706010471 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 568706010472 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 568706010473 DNA binding site [nucleotide binding] 568706010474 gamma-glutamyl kinase; Provisional; Region: PRK05429 568706010475 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 568706010476 nucleotide binding site [chemical binding]; other site 568706010477 homotetrameric interface [polypeptide binding]; other site 568706010478 putative phosphate binding site [ion binding]; other site 568706010479 putative allosteric binding site; other site 568706010480 PUA domain; Region: PUA; pfam01472 568706010481 GTPase CgtA; Reviewed; Region: obgE; PRK12299 568706010482 GTP1/OBG; Region: GTP1_OBG; pfam01018 568706010483 Obg GTPase; Region: Obg; cd01898 568706010484 G1 box; other site 568706010485 GTP/Mg2+ binding site [chemical binding]; other site 568706010486 Switch I region; other site 568706010487 G2 box; other site 568706010488 G3 box; other site 568706010489 Switch II region; other site 568706010490 G4 box; other site 568706010491 G5 box; other site 568706010492 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 568706010493 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 568706010494 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 568706010495 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 568706010496 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 568706010497 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 568706010498 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 568706010499 substrate binding pocket [chemical binding]; other site 568706010500 chain length determination region; other site 568706010501 substrate-Mg2+ binding site; other site 568706010502 catalytic residues [active] 568706010503 aspartate-rich region 1; other site 568706010504 active site lid residues [active] 568706010505 aspartate-rich region 2; other site 568706010506 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 568706010507 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706010508 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 568706010509 dimerization interface [polypeptide binding]; other site 568706010510 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 568706010511 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 568706010512 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 568706010513 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 568706010514 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 568706010515 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 568706010516 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 568706010518 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010519 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010520 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010521 Integrase core domain; Region: rve; pfam00665 568706010522 Integrase core domain; Region: rve_3; pfam13683 568706010523 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 568706010524 30S subunit binding site; other site 568706010525 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 568706010526 active site 568706010527 phosphorylation site [posttranslational modification] 568706010528 HPr kinase/phosphorylase; Provisional; Region: PRK05428 568706010529 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 568706010530 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 568706010531 Hpr binding site; other site 568706010532 active site 568706010533 homohexamer subunit interaction site [polypeptide binding]; other site 568706010534 Cytochrome c; Region: Cytochrom_C; pfam00034 568706010535 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 568706010536 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 568706010537 Cytochrome c; Region: Cytochrom_C; pfam00034 568706010539 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 568706010540 AAA domain; Region: AAA_18; pfam13238 568706010541 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 568706010542 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 568706010543 Sporulation related domain; Region: SPOR; pfam05036 568706010544 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010545 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010546 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010547 Integrase core domain; Region: rve; pfam00665 568706010548 Integrase core domain; Region: rve_3; pfam13683 568706010550 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 568706010551 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 568706010552 DNA binding residues [nucleotide binding] 568706010553 putative dimer interface [polypeptide binding]; other site 568706010554 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 568706010555 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010556 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010557 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010558 Integrase core domain; Region: rve; pfam00665 568706010559 Integrase core domain; Region: rve_3; pfam13683 568706010560 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 568706010561 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 568706010562 molybdopterin cofactor binding site [chemical binding]; other site 568706010563 substrate binding site [chemical binding]; other site 568706010564 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 568706010565 molybdopterin cofactor binding site; other site 568706010566 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 568706010567 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706010568 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706010569 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 568706010570 active site 568706010571 oxalacetate binding site [chemical binding]; other site 568706010572 citrylCoA binding site [chemical binding]; other site 568706010573 coenzyme A binding site [chemical binding]; other site 568706010574 catalytic triad [active] 568706010575 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 568706010576 CoA binding domain; Region: CoA_binding_2; pfam13380 568706010577 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 568706010578 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 568706010579 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706010580 Proteins involved in DNA damage response, similar to the AidB gene product; Region: AidB; cd01154 568706010581 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 568706010582 FAD binding site [chemical binding]; other site 568706010583 substrate binding site [chemical binding]; other site 568706010584 catalytic residues [active] 568706010585 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 568706010586 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 568706010587 substrate binding site [chemical binding]; other site 568706010588 oxyanion hole (OAH) forming residues; other site 568706010589 trimer interface [polypeptide binding]; other site 568706010590 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 568706010591 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 568706010592 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 568706010593 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 568706010594 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 568706010595 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 568706010596 dimer interface [polypeptide binding]; other site 568706010597 active site 568706010598 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 568706010599 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 568706010600 putative DNA binding site [nucleotide binding]; other site 568706010601 putative Zn2+ binding site [ion binding]; other site 568706010602 AsnC family; Region: AsnC_trans_reg; pfam01037 568706010603 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 568706010604 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 568706010605 glutaminase active site [active] 568706010606 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 568706010607 dimer interface [polypeptide binding]; other site 568706010608 active site 568706010609 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 568706010610 dimer interface [polypeptide binding]; other site 568706010611 active site 568706010612 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 568706010613 extended (e) SDRs; Region: SDR_e; cd08946 568706010614 NAD(P) binding site [chemical binding]; other site 568706010615 active site 568706010616 substrate binding site [chemical binding]; other site 568706010617 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706010618 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 568706010619 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 568706010620 enoyl-CoA hydratase; Provisional; Region: PRK07658 568706010621 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 568706010622 substrate binding site [chemical binding]; other site 568706010623 oxyanion hole (OAH) forming residues; other site 568706010624 trimer interface [polypeptide binding]; other site 568706010625 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 568706010626 CoA binding domain; Region: CoA_binding_2; pfam13380 568706010627 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 568706010628 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 568706010629 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706010630 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706010631 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 568706010632 putative substrate binding pocket [chemical binding]; other site 568706010633 dimerization interface [polypeptide binding]; other site 568706010634 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 568706010635 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 568706010636 NADP binding site [chemical binding]; other site 568706010637 dimer interface [polypeptide binding]; other site 568706010638 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 568706010639 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 568706010640 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 568706010641 homotrimer interaction site [polypeptide binding]; other site 568706010642 putative active site [active] 568706010643 Uncharacterized conserved protein [Function unknown]; Region: COG3342 568706010644 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 568706010645 acetylornithine deacetylase; Provisional; Region: PRK07522 568706010646 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 568706010647 metal binding site [ion binding]; metal-binding site 568706010648 putative dimer interface [polypeptide binding]; other site 568706010649 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706010650 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 568706010651 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 568706010652 FAD binding site [chemical binding]; other site 568706010653 substrate binding site [chemical binding]; other site 568706010654 catalytic base [active] 568706010655 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 568706010656 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 568706010657 active site 568706010658 D-lactate dehydrogenase; Provisional; Region: PRK11183 568706010659 FAD binding domain; Region: FAD_binding_4; pfam01565 568706010660 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 568706010661 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 568706010662 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706010663 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 568706010664 dimerization interface [polypeptide binding]; other site 568706010665 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706010667 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 568706010668 substrate binding site [chemical binding]; other site 568706010669 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010670 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010671 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010672 Integrase core domain; Region: rve; pfam00665 568706010673 Integrase core domain; Region: rve_3; pfam13683 568706010674 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 568706010675 CoenzymeA binding site [chemical binding]; other site 568706010676 subunit interaction site [polypeptide binding]; other site 568706010677 PHB binding site; other site 568706010679 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 568706010680 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 568706010681 motif II; other site 568706010682 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 568706010683 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706010684 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 568706010685 substrate binding pocket [chemical binding]; other site 568706010686 dimerization interface [polypeptide binding]; other site 568706010687 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706010688 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 568706010689 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 568706010690 Subunit I/III interface [polypeptide binding]; other site 568706010691 D-pathway; other site 568706010692 Subunit I/VIIc interface [polypeptide binding]; other site 568706010693 Subunit I/IV interface [polypeptide binding]; other site 568706010694 Subunit I/II interface [polypeptide binding]; other site 568706010695 Low-spin heme (heme a) binding site [chemical binding]; other site 568706010696 Subunit I/VIIa interface [polypeptide binding]; other site 568706010697 Subunit I/VIa interface [polypeptide binding]; other site 568706010698 Dimer interface; other site 568706010699 Putative water exit pathway; other site 568706010700 Binuclear center (heme a3/CuB) [ion binding]; other site 568706010701 K-pathway; other site 568706010702 Subunit I/Vb interface [polypeptide binding]; other site 568706010703 Putative proton exit pathway; other site 568706010704 Subunit I/VIb interface; other site 568706010705 Subunit I/VIc interface [polypeptide binding]; other site 568706010706 Electron transfer pathway; other site 568706010707 Subunit I/VIIIb interface [polypeptide binding]; other site 568706010708 Subunit I/VIIb interface [polypeptide binding]; other site 568706010709 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 568706010710 Transcriptional regulators [Transcription]; Region: GntR; COG1802 568706010711 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706010712 DNA-binding site [nucleotide binding]; DNA binding site 568706010713 FCD domain; Region: FCD; pfam07729 568706010714 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 568706010715 homodimer interface [polypeptide binding]; other site 568706010716 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706010717 catalytic residue [active] 568706010719 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010720 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010721 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010722 Integrase core domain; Region: rve; pfam00665 568706010723 Integrase core domain; Region: rve_3; pfam13683 568706010724 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 568706010725 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 568706010726 acyl-activating enzyme (AAE) consensus motif; other site 568706010727 putative AMP binding site [chemical binding]; other site 568706010728 putative active site [active] 568706010729 putative CoA binding site [chemical binding]; other site 568706010730 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706010731 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 568706010732 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 568706010733 DUF35 OB-fold domain; Region: DUF35; pfam01796 568706010734 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 568706010735 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 568706010736 active site 568706010737 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 568706010738 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706010740 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 568706010741 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 568706010743 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 568706010744 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 568706010745 DNA binding site [nucleotide binding] 568706010746 active site 568706010747 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 568706010748 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 568706010749 Uncharacterized conserved protein [Function unknown]; Region: COG1683 568706010750 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 568706010751 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 568706010752 Walker A/P-loop; other site 568706010753 ATP binding site [chemical binding]; other site 568706010754 Q-loop/lid; other site 568706010755 ABC transporter signature motif; other site 568706010756 Walker B; other site 568706010757 D-loop; other site 568706010758 H-loop/switch region; other site 568706010759 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 568706010760 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 568706010761 ABC-ATPase subunit interface; other site 568706010762 dimer interface [polypeptide binding]; other site 568706010763 putative PBP binding regions; other site 568706010764 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 568706010765 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 568706010766 intersubunit interface [polypeptide binding]; other site 568706010767 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 568706010768 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 568706010769 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 568706010770 Secretin and TonB N terminus short domain; Region: STN; smart00965 568706010771 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 568706010772 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 568706010773 N-terminal plug; other site 568706010774 ligand-binding site [chemical binding]; other site 568706010775 fec operon regulator FecR; Reviewed; Region: PRK09774 568706010776 FecR protein; Region: FecR; pfam04773 568706010777 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 568706010778 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 568706010779 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 568706010780 DNA binding residues [nucleotide binding] 568706010781 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 568706010782 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 568706010783 catalytic loop [active] 568706010784 iron binding site [ion binding]; other site 568706010785 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 568706010786 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 568706010787 catalytic loop [active] 568706010788 iron binding site [ion binding]; other site 568706010789 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 568706010790 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 568706010791 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010792 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010793 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010794 Integrase core domain; Region: rve; pfam00665 568706010795 Integrase core domain; Region: rve_3; pfam13683 568706010798 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010799 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010800 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010801 Integrase core domain; Region: rve; pfam00665 568706010802 Integrase core domain; Region: rve_3; pfam13683 568706010804 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706010805 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 568706010806 active site 568706010807 catalytic residues [active] 568706010808 metal binding site [ion binding]; metal-binding site 568706010810 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706010811 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706010812 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 568706010813 putative dimerization interface [polypeptide binding]; other site 568706010814 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 568706010815 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 568706010816 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 568706010817 thiS-thiF/thiG interaction site; other site 568706010818 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 568706010819 BON domain; Region: BON; pfam04972 568706010820 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 568706010821 signal recognition particle protein; Provisional; Region: PRK10867 568706010822 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 568706010823 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 568706010824 GTP binding site [chemical binding]; other site 568706010825 Signal peptide binding domain; Region: SRP_SPB; pfam02978 568706010826 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 568706010827 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 568706010828 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 568706010829 amidase catalytic site [active] 568706010830 Zn binding residues [ion binding]; other site 568706010831 substrate binding site [chemical binding]; other site 568706010832 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010833 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010834 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010835 Integrase core domain; Region: rve; pfam00665 568706010836 Integrase core domain; Region: rve_3; pfam13683 568706010837 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 568706010838 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 568706010839 putative C-terminal domain interface [polypeptide binding]; other site 568706010840 putative GSH binding site (G-site) [chemical binding]; other site 568706010841 putative dimer interface [polypeptide binding]; other site 568706010842 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 568706010843 putative N-terminal domain interface [polypeptide binding]; other site 568706010844 putative dimer interface [polypeptide binding]; other site 568706010845 putative substrate binding pocket (H-site) [chemical binding]; other site 568706010846 heat shock protein 90; Provisional; Region: PRK05218 568706010847 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 568706010848 ATP binding site [chemical binding]; other site 568706010849 Mg2+ binding site [ion binding]; other site 568706010850 G-X-G motif; other site 568706010852 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 568706010853 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010854 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010855 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010856 Integrase core domain; Region: rve; pfam00665 568706010857 Integrase core domain; Region: rve_3; pfam13683 568706010859 Repair protein; Region: Repair_PSII; pfam04536 568706010860 LemA family; Region: LemA; pfam04011 568706010861 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 568706010862 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 568706010863 ATP binding site [chemical binding]; other site 568706010864 Mg++ binding site [ion binding]; other site 568706010865 motif III; other site 568706010866 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 568706010867 nucleotide binding region [chemical binding]; other site 568706010868 ATP-binding site [chemical binding]; other site 568706010869 LysE type translocator; Region: LysE; cl00565 568706010870 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 568706010871 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 568706010872 G1 box; other site 568706010873 putative GEF interaction site [polypeptide binding]; other site 568706010874 GTP/Mg2+ binding site [chemical binding]; other site 568706010875 Switch I region; other site 568706010876 G2 box; other site 568706010877 G3 box; other site 568706010878 Switch II region; other site 568706010879 G4 box; other site 568706010880 G5 box; other site 568706010881 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 568706010882 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 568706010883 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 568706010884 heme binding site [chemical binding]; other site 568706010885 ferroxidase pore; other site 568706010886 ferroxidase diiron center [ion binding]; other site 568706010887 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010888 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010889 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010890 Integrase core domain; Region: rve; pfam00665 568706010891 Integrase core domain; Region: rve_3; pfam13683 568706010892 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 568706010893 AsnC family; Region: AsnC_trans_reg; pfam01037 568706010895 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 568706010896 CGNR zinc finger; Region: zf-CGNR; pfam11706 568706010897 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 568706010898 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 568706010899 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 568706010900 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 568706010901 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 568706010902 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706010903 dimer interface [polypeptide binding]; other site 568706010904 conserved gate region; other site 568706010905 putative PBP binding loops; other site 568706010906 ABC-ATPase subunit interface; other site 568706010907 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 568706010908 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706010909 Walker A/P-loop; other site 568706010910 ATP binding site [chemical binding]; other site 568706010911 Q-loop/lid; other site 568706010912 ABC transporter signature motif; other site 568706010913 Walker B; other site 568706010914 D-loop; other site 568706010915 H-loop/switch region; other site 568706010916 TOBE domain; Region: TOBE; cl01440 568706010917 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 568706010918 putative active site [active] 568706010919 catalytic site [active] 568706010920 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 568706010921 PLD-like domain; Region: PLDc_2; pfam13091 568706010922 putative active site [active] 568706010923 catalytic site [active] 568706010924 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010925 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010926 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010927 Integrase core domain; Region: rve; pfam00665 568706010928 Integrase core domain; Region: rve_3; pfam13683 568706010930 HipA N-terminal domain; Region: Couple_hipA; cl11853 568706010931 HipA-like N-terminal domain; Region: HipA_N; pfam07805 568706010932 HipA-like C-terminal domain; Region: HipA_C; pfam07804 568706010933 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 568706010934 non-specific DNA binding site [nucleotide binding]; other site 568706010935 salt bridge; other site 568706010936 sequence-specific DNA binding site [nucleotide binding]; other site 568706010938 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706010939 intracellular protease, PfpI family; Region: PfpI; TIGR01382 568706010940 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 568706010941 conserved cys residue [active] 568706010942 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 568706010943 iron-sulfur cluster [ion binding]; other site 568706010944 [2Fe-2S] cluster binding site [ion binding]; other site 568706010945 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 568706010946 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 568706010947 catalytic loop [active] 568706010948 iron binding site [ion binding]; other site 568706010949 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 568706010950 FAD binding pocket [chemical binding]; other site 568706010951 conserved FAD binding motif [chemical binding]; other site 568706010952 phosphate binding motif [ion binding]; other site 568706010953 beta-alpha-beta structure motif; other site 568706010954 NAD binding pocket [chemical binding]; other site 568706010955 DctM-like transporters; Region: DctM; pfam06808 568706010956 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 568706010958 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 568706010960 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010961 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010962 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010963 Integrase core domain; Region: rve; pfam00665 568706010964 Integrase core domain; Region: rve_3; pfam13683 568706010965 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 568706010966 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 568706010967 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 568706010968 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 568706010969 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 568706010970 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 568706010971 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 568706010972 lipoyl attachment site [posttranslational modification]; other site 568706010973 glycine dehydrogenase; Provisional; Region: PRK05367 568706010974 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 568706010975 tetramer interface [polypeptide binding]; other site 568706010976 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706010977 catalytic residue [active] 568706010978 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 568706010979 tetramer interface [polypeptide binding]; other site 568706010980 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706010981 catalytic residue [active] 568706010982 Transcriptional regulators [Transcription]; Region: FadR; COG2186 568706010983 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706010984 DNA-binding site [nucleotide binding]; DNA binding site 568706010985 FCD domain; Region: FCD; pfam07729 568706010986 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568706010987 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568706010988 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 568706010989 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706010991 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706010992 Winged helix-turn helix; Region: HTH_29; pfam13551 568706010993 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706010994 Integrase core domain; Region: rve; pfam00665 568706010995 Integrase core domain; Region: rve_3; pfam13683 568706010997 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 568706010998 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 568706010999 Ligand binding site; other site 568706011000 Putative Catalytic site; other site 568706011001 DXD motif; other site 568706011002 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 568706011003 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 568706011004 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 568706011005 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 568706011006 active site 568706011007 catalytic site [active] 568706011008 substrate binding site [chemical binding]; other site 568706011010 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706011011 Winged helix-turn helix; Region: HTH_29; pfam13551 568706011012 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706011013 Integrase core domain; Region: rve; pfam00665 568706011014 Integrase core domain; Region: rve_3; pfam13683 568706011016 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 568706011017 Ligand Binding Site [chemical binding]; other site 568706011018 Putative phosphatase (DUF442); Region: DUF442; cl17385 568706011019 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 568706011020 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706011021 DNA-binding site [nucleotide binding]; DNA binding site 568706011022 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 568706011023 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706011024 homodimer interface [polypeptide binding]; other site 568706011025 catalytic residue [active] 568706011027 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 568706011028 MgtC family; Region: MgtC; pfam02308 568706011029 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 568706011030 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 568706011031 CoA-transferase family III; Region: CoA_transf_3; pfam02515 568706011032 enoyl-CoA hydratase; Provisional; Region: PRK09245 568706011033 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 568706011034 substrate binding site [chemical binding]; other site 568706011035 oxyanion hole (OAH) forming residues; other site 568706011036 trimer interface [polypeptide binding]; other site 568706011037 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706011038 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 568706011039 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706011040 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 568706011041 dimerization interface [polypeptide binding]; other site 568706011042 substrate binding pocket [chemical binding]; other site 568706011043 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 568706011044 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 568706011045 active site 568706011046 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 568706011047 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 568706011048 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 568706011049 dimer interface [polypeptide binding]; other site 568706011050 active site 568706011052 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706011053 Winged helix-turn helix; Region: HTH_29; pfam13551 568706011054 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706011055 Integrase core domain; Region: rve; pfam00665 568706011056 Integrase core domain; Region: rve_3; pfam13683 568706011057 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706011058 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706011059 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 568706011060 putative dimerization interface [polypeptide binding]; other site 568706011061 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 568706011062 DNA-binding site [nucleotide binding]; DNA binding site 568706011063 RNA-binding motif; other site 568706011064 Transcriptional regulators [Transcription]; Region: GntR; COG1802 568706011065 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706011066 DNA-binding site [nucleotide binding]; DNA binding site 568706011067 FCD domain; Region: FCD; pfam07729 568706011068 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 568706011069 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 568706011070 Glutamate binding site [chemical binding]; other site 568706011071 NAD binding site [chemical binding]; other site 568706011072 catalytic residues [active] 568706011074 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706011075 Winged helix-turn helix; Region: HTH_29; pfam13551 568706011076 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706011077 Integrase core domain; Region: rve; pfam00665 568706011078 Integrase core domain; Region: rve_3; pfam13683 568706011079 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 568706011080 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 568706011081 protein binding site [polypeptide binding]; other site 568706011082 Uncharacterized conserved protein [Function unknown]; Region: COG0327 568706011083 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 568706011084 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 568706011085 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 568706011086 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 568706011087 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 568706011088 [2Fe-2S] cluster binding site [ion binding]; other site 568706011089 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 568706011090 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 568706011091 Qi binding site; other site 568706011092 intrachain domain interface; other site 568706011093 interchain domain interface [polypeptide binding]; other site 568706011094 heme bH binding site [chemical binding]; other site 568706011095 heme bL binding site [chemical binding]; other site 568706011096 Qo binding site; other site 568706011097 interchain domain interface [polypeptide binding]; other site 568706011098 intrachain domain interface; other site 568706011099 Qi binding site; other site 568706011100 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 568706011101 Qo binding site; other site 568706011102 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 568706011103 stringent starvation protein A; Provisional; Region: sspA; PRK09481 568706011104 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 568706011105 C-terminal domain interface [polypeptide binding]; other site 568706011106 putative GSH binding site (G-site) [chemical binding]; other site 568706011107 dimer interface [polypeptide binding]; other site 568706011108 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 568706011109 dimer interface [polypeptide binding]; other site 568706011110 N-terminal domain interface [polypeptide binding]; other site 568706011111 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 568706011113 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 568706011114 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 568706011115 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706011116 Winged helix-turn helix; Region: HTH_29; pfam13551 568706011117 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706011118 Integrase core domain; Region: rve; pfam00665 568706011119 Integrase core domain; Region: rve_3; pfam13683 568706011120 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 568706011121 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 568706011122 ATP binding site [chemical binding]; other site 568706011123 substrate interface [chemical binding]; other site 568706011124 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 568706011125 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 568706011126 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 568706011127 protein binding site [polypeptide binding]; other site 568706011128 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 568706011129 Catalytic dyad [active] 568706011130 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 568706011131 Peptidase family M23; Region: Peptidase_M23; pfam01551 568706011132 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 568706011133 catalytic core [active] 568706011134 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 568706011135 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 568706011136 active site residue [active] 568706011137 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 568706011138 GSH binding site [chemical binding]; other site 568706011139 catalytic residues [active] 568706011140 preprotein translocase subunit SecB; Validated; Region: PRK05751 568706011141 SecA binding site; other site 568706011142 Preprotein binding site; other site 568706011143 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 568706011144 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 568706011145 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 568706011147 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 568706011148 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 568706011149 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 568706011150 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 568706011151 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 568706011152 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 568706011153 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 568706011154 DctM-like transporters; Region: DctM; pfam06808 568706011155 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 568706011156 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 568706011157 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 568706011158 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706011159 ABC-ATPase subunit interface; other site 568706011160 putative PBP binding loops; other site 568706011161 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 568706011162 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 568706011163 Walker A/P-loop; other site 568706011164 ATP binding site [chemical binding]; other site 568706011165 Q-loop/lid; other site 568706011166 ABC transporter signature motif; other site 568706011167 Walker B; other site 568706011168 D-loop; other site 568706011169 H-loop/switch region; other site 568706011170 NMT1/THI5 like; Region: NMT1; pfam09084 568706011171 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 568706011172 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 568706011173 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 568706011174 catalytic loop [active] 568706011175 iron binding site [ion binding]; other site 568706011176 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 568706011177 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 568706011178 putative hydrophobic ligand binding site [chemical binding]; other site 568706011179 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 568706011180 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 568706011181 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 568706011182 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 568706011183 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 568706011184 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 568706011185 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 568706011186 [2Fe-2S] cluster binding site [ion binding]; other site 568706011187 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 568706011188 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 568706011189 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 568706011190 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 568706011191 iron-sulfur cluster [ion binding]; other site 568706011192 [2Fe-2S] cluster binding site [ion binding]; other site 568706011193 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 568706011194 putative alpha subunit interface [polypeptide binding]; other site 568706011195 putative active site [active] 568706011196 putative substrate binding site [chemical binding]; other site 568706011197 Fe binding site [ion binding]; other site 568706011198 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 568706011199 inter-subunit interface; other site 568706011200 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 568706011201 Isochorismatase family; Region: Isochorismatase; pfam00857 568706011202 catalytic triad [active] 568706011203 conserved cis-peptide bond; other site 568706011204 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 568706011206 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 568706011207 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 568706011208 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 568706011209 Ligand binding site; other site 568706011210 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 568706011211 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 568706011212 XdhC Rossmann domain; Region: XdhC_C; pfam13478 568706011213 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 568706011214 MarR family; Region: MarR_2; pfam12802 568706011215 Cation transport protein; Region: TrkH; cl17365 568706011216 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 568706011217 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 568706011218 TrkA-N domain; Region: TrkA_N; pfam02254 568706011219 TrkA-C domain; Region: TrkA_C; pfam02080 568706011220 TrkA-N domain; Region: TrkA_N; pfam02254 568706011221 TrkA-C domain; Region: TrkA_C; pfam02080 568706011222 Response regulator receiver domain; Region: Response_reg; pfam00072 568706011223 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 568706011224 active site 568706011225 phosphorylation site [posttranslational modification] 568706011226 intermolecular recognition site; other site 568706011227 dimerization interface [polypeptide binding]; other site 568706011228 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 568706011229 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 568706011230 dimerization interface [polypeptide binding]; other site 568706011231 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 568706011232 dimer interface [polypeptide binding]; other site 568706011233 phosphorylation site [posttranslational modification] 568706011234 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 568706011235 ATP binding site [chemical binding]; other site 568706011236 Mg2+ binding site [ion binding]; other site 568706011237 G-X-G motif; other site 568706011238 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 568706011239 16S rRNA methyltransferase B; Provisional; Region: PRK10901 568706011240 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 568706011241 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 568706011242 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 568706011243 L-aspartate dehydrogenase; Provisional; Region: PRK13303 568706011244 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 568706011245 Domain of unknown function DUF108; Region: DUF108; pfam01958 568706011246 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 568706011247 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 568706011248 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706011249 Winged helix-turn helix; Region: HTH_29; pfam13551 568706011250 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706011251 Integrase core domain; Region: rve; pfam00665 568706011252 Integrase core domain; Region: rve_3; pfam13683 568706011253 Transcriptional regulators [Transcription]; Region: GntR; COG1802 568706011254 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706011255 DNA-binding site [nucleotide binding]; DNA binding site 568706011256 FCD domain; Region: FCD; pfam07729 568706011257 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706011258 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 568706011259 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 568706011260 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 568706011261 active site 1 [active] 568706011262 dimer interface [polypeptide binding]; other site 568706011263 hexamer interface [polypeptide binding]; other site 568706011264 active site 2 [active] 568706011265 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 568706011266 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 568706011267 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 568706011268 FeS/SAM binding site; other site 568706011269 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 568706011270 Ferritin-like domain; Region: Ferritin; pfam00210 568706011271 dinuclear metal binding motif [ion binding]; other site 568706011272 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 568706011273 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 568706011274 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 568706011275 motif II; other site 568706011276 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 568706011277 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 568706011278 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 568706011279 putative active site [active] 568706011280 substrate binding site [chemical binding]; other site 568706011281 putative cosubstrate binding site; other site 568706011282 catalytic site [active] 568706011283 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 568706011284 substrate binding site [chemical binding]; other site 568706011285 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 568706011286 active site 568706011287 catalytic residues [active] 568706011288 metal binding site [ion binding]; metal-binding site 568706011289 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 568706011290 kynureninase; Region: kynureninase; TIGR01814 568706011291 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568706011292 catalytic residue [active] 568706011293 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 568706011294 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 568706011295 putative DNA binding site [nucleotide binding]; other site 568706011296 putative Zn2+ binding site [ion binding]; other site 568706011297 AsnC family; Region: AsnC_trans_reg; pfam01037 568706011298 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 568706011299 DNA protecting protein DprA; Region: dprA; TIGR00732 568706011300 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 568706011301 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 568706011302 active site 568706011303 catalytic residues [active] 568706011304 metal binding site [ion binding]; metal-binding site 568706011305 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 568706011306 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 568706011307 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 568706011308 substrate binding pocket [chemical binding]; other site 568706011309 membrane-bound complex binding site; other site 568706011310 hinge residues; other site 568706011311 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 568706011312 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 568706011313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706011314 homodimer interface [polypeptide binding]; other site 568706011315 catalytic residue [active] 568706011317 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706011318 Winged helix-turn helix; Region: HTH_29; pfam13551 568706011319 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706011320 Integrase core domain; Region: rve; pfam00665 568706011321 Integrase core domain; Region: rve_3; pfam13683 568706011322 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 568706011323 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 568706011324 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 568706011325 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 568706011326 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 568706011327 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706011328 Winged helix-turn helix; Region: HTH_29; pfam13551 568706011329 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706011330 Integrase core domain; Region: rve; pfam00665 568706011331 Integrase core domain; Region: rve_3; pfam13683 568706011332 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 568706011333 putative substrate translocation pore; other site 568706011334 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 568706011335 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 568706011336 Substrate binding site; other site 568706011337 Mg++ binding site; other site 568706011338 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 568706011339 active site 568706011340 substrate binding site [chemical binding]; other site 568706011341 CoA binding site [chemical binding]; other site 568706011342 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 568706011343 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 568706011344 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 568706011345 Cu(I) binding site [ion binding]; other site 568706011346 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 568706011347 UbiA prenyltransferase family; Region: UbiA; pfam01040 568706011348 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 568706011349 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 568706011350 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 568706011351 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 568706011352 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 568706011353 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 568706011354 Subunit III/VIIa interface [polypeptide binding]; other site 568706011355 Phospholipid binding site [chemical binding]; other site 568706011356 Subunit I/III interface [polypeptide binding]; other site 568706011357 Subunit III/VIb interface [polypeptide binding]; other site 568706011358 Subunit III/VIa interface; other site 568706011359 Subunit III/Vb interface [polypeptide binding]; other site 568706011360 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 568706011361 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 568706011362 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 568706011363 Subunit I/III interface [polypeptide binding]; other site 568706011364 D-pathway; other site 568706011365 Subunit I/VIIc interface [polypeptide binding]; other site 568706011366 Subunit I/IV interface [polypeptide binding]; other site 568706011367 Subunit I/II interface [polypeptide binding]; other site 568706011368 Low-spin heme (heme a) binding site [chemical binding]; other site 568706011369 Subunit I/VIIa interface [polypeptide binding]; other site 568706011370 Subunit I/VIa interface [polypeptide binding]; other site 568706011371 Dimer interface; other site 568706011372 Putative water exit pathway; other site 568706011373 Binuclear center (heme a3/CuB) [ion binding]; other site 568706011374 K-pathway; other site 568706011375 Subunit I/Vb interface [polypeptide binding]; other site 568706011376 Putative proton exit pathway; other site 568706011377 Subunit I/VIb interface; other site 568706011378 Subunit I/VIc interface [polypeptide binding]; other site 568706011379 Electron transfer pathway; other site 568706011380 Subunit I/VIIIb interface [polypeptide binding]; other site 568706011381 Subunit I/VIIb interface [polypeptide binding]; other site 568706011382 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 568706011383 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 568706011384 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 568706011385 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 568706011386 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 568706011387 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_hydrolase_3; cd03676 568706011388 nudix motif; other site 568706011389 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 568706011390 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 568706011391 flexible hinge region; other site 568706011392 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 568706011393 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 568706011394 active site 568706011395 metal binding site [ion binding]; metal-binding site 568706011396 hexamer interface [polypeptide binding]; other site 568706011397 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 568706011398 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 568706011399 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 568706011400 DNA binding residues [nucleotide binding] 568706011401 S-formylglutathione hydrolase; Region: PLN02442 568706011402 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 568706011403 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 568706011404 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 568706011405 substrate binding site [chemical binding]; other site 568706011406 catalytic Zn binding site [ion binding]; other site 568706011407 NAD binding site [chemical binding]; other site 568706011408 structural Zn binding site [ion binding]; other site 568706011409 dimer interface [polypeptide binding]; other site 568706011410 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 568706011411 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 568706011412 active site 568706011413 dimer interface [polypeptide binding]; other site 568706011414 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 568706011415 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 568706011416 active site 568706011417 FMN binding site [chemical binding]; other site 568706011418 substrate binding site [chemical binding]; other site 568706011419 3Fe-4S cluster binding site [ion binding]; other site 568706011420 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 568706011421 domain interface; other site 568706011422 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 568706011423 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 568706011424 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 568706011425 OmpW family; Region: OmpW; cl17427 568706011426 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706011427 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 568706011428 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 568706011429 Walker A/P-loop; other site 568706011430 ATP binding site [chemical binding]; other site 568706011431 Q-loop/lid; other site 568706011432 ABC transporter signature motif; other site 568706011433 Walker B; other site 568706011434 D-loop; other site 568706011435 H-loop/switch region; other site 568706011436 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 568706011437 Permease; Region: Permease; pfam02405 568706011438 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 568706011439 mce related protein; Region: MCE; pfam02470 568706011440 VacJ like lipoprotein; Region: VacJ; cl01073 568706011441 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 568706011442 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 568706011443 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 568706011444 Walker A/P-loop; other site 568706011445 ATP binding site [chemical binding]; other site 568706011446 Q-loop/lid; other site 568706011447 ABC transporter signature motif; other site 568706011448 Walker B; other site 568706011449 D-loop; other site 568706011450 H-loop/switch region; other site 568706011451 ABC-2 type transporter; Region: ABC2_membrane; cl17235 568706011452 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 568706011453 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 568706011454 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 568706011455 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 568706011456 hinge; other site 568706011457 active site 568706011458 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 568706011459 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 568706011460 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 568706011461 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 568706011462 NAD binding site [chemical binding]; other site 568706011463 dimerization interface [polypeptide binding]; other site 568706011464 product binding site; other site 568706011465 substrate binding site [chemical binding]; other site 568706011466 zinc binding site [ion binding]; other site 568706011467 catalytic residues [active] 568706011468 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 568706011469 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 568706011470 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706011471 homodimer interface [polypeptide binding]; other site 568706011472 catalytic residue [active] 568706011473 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 568706011474 putative active site pocket [active] 568706011475 4-fold oligomerization interface [polypeptide binding]; other site 568706011476 metal binding residues [ion binding]; metal-binding site 568706011477 3-fold/trimer interface [polypeptide binding]; other site 568706011478 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 568706011479 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 568706011480 putative active site [active] 568706011481 oxyanion strand; other site 568706011482 catalytic triad [active] 568706011483 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 568706011484 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 568706011485 catalytic residues [active] 568706011486 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 568706011487 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 568706011488 substrate binding site [chemical binding]; other site 568706011489 glutamase interaction surface [polypeptide binding]; other site 568706011490 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 568706011491 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 568706011492 metal binding site [ion binding]; metal-binding site 568706011493 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 568706011494 nucleotide binding site/active site [active] 568706011495 HIT family signature motif; other site 568706011496 catalytic residue [active] 568706011497 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 568706011498 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 568706011499 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 568706011501 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706011502 Pertussis toxin, subunit 1; Region: Pertussis_S1; pfam02917 568706011503 Aerolysin/Pertussis toxin (APT) domain; Region: APT; pfam03440 568706011504 Pertussis toxin, subunit 2 and 3, C-terminal domain; Region: Pertussis_S2S3; pfam02918 568706011505 Pertussis toxin S4 subunit; Region: Pertus-S4-tox; pfam09275 568706011506 Pertussis toxin S5 subunit; Region: Pertus-S5-tox; pfam09276 568706011507 Aerolysin/Pertussis toxin (APT) domain; Region: APT; pfam03440 568706011508 Pertussis toxin, subunit 2 and 3, C-terminal domain; Region: Pertussis_S2S3; pfam02918 568706011509 TrbC/VIRB2 family; Region: TrbC; pfam04956 568706011510 Type IV secretory pathway, VirB3-like protein; Region: VirB3; pfam05101 568706011511 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 568706011512 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 568706011513 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 568706011514 VirB8 protein; Region: VirB8; pfam04335 568706011515 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 568706011516 VirB7 interaction site; other site 568706011517 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 568706011518 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 568706011519 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 568706011520 Walker A motif; other site 568706011521 hexamer interface [polypeptide binding]; other site 568706011522 ATP binding site [chemical binding]; other site 568706011523 Walker B motif; other site 568706011524 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 568706011525 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 568706011526 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 568706011527 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 568706011528 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 568706011529 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 568706011530 G1 box; other site 568706011531 GTP/Mg2+ binding site [chemical binding]; other site 568706011532 G2 box; other site 568706011533 Switch I region; other site 568706011534 G3 box; other site 568706011535 Switch II region; other site 568706011536 G4 box; other site 568706011537 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 568706011538 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 568706011539 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 568706011540 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 568706011541 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706011542 dimer interface [polypeptide binding]; other site 568706011543 conserved gate region; other site 568706011544 putative PBP binding loops; other site 568706011545 ABC-ATPase subunit interface; other site 568706011546 dipeptide transporter; Provisional; Region: PRK10913 568706011547 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706011548 dimer interface [polypeptide binding]; other site 568706011549 conserved gate region; other site 568706011550 putative PBP binding loops; other site 568706011551 ABC-ATPase subunit interface; other site 568706011556 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 568706011557 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 568706011558 Walker A/P-loop; other site 568706011559 ATP binding site [chemical binding]; other site 568706011560 Q-loop/lid; other site 568706011561 ABC transporter signature motif; other site 568706011562 Walker B; other site 568706011563 D-loop; other site 568706011564 H-loop/switch region; other site 568706011565 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 568706011566 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 568706011567 ABC-ATPase subunit interface; other site 568706011568 dimer interface [polypeptide binding]; other site 568706011569 putative PBP binding regions; other site 568706011570 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 568706011571 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 568706011572 binding surface 568706011573 TPR motif; other site 568706011574 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 568706011575 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 568706011576 ligand binding site [chemical binding]; other site 568706011577 translocation protein TolB; Provisional; Region: tolB; PRK02889 568706011578 TolB amino-terminal domain; Region: TolB_N; pfam04052 568706011579 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 568706011580 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 568706011581 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 568706011582 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 568706011583 TolA protein; Region: tolA_full; TIGR02794 568706011584 TonB C terminal; Region: TonB_2; pfam13103 568706011585 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 568706011586 TolR protein; Region: tolR; TIGR02801 568706011587 TolQ protein; Region: tolQ; TIGR02796 568706011588 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 568706011589 active site 568706011590 prolyl-tRNA synthetase; Provisional; Region: PRK09194 568706011591 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 568706011592 dimer interface [polypeptide binding]; other site 568706011593 motif 1; other site 568706011594 active site 568706011595 motif 2; other site 568706011596 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 568706011597 putative deacylase active site [active] 568706011598 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 568706011599 active site 568706011600 motif 3; other site 568706011601 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 568706011602 anticodon binding site; other site 568706011603 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 568706011604 putative active site [active] 568706011605 Ap4A binding site [chemical binding]; other site 568706011606 nudix motif; other site 568706011607 putative metal binding site [ion binding]; other site 568706011608 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 568706011609 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 568706011610 active site 568706011611 phosphorylation site [posttranslational modification] 568706011612 intermolecular recognition site; other site 568706011613 dimerization interface [polypeptide binding]; other site 568706011614 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 568706011615 DNA binding site [nucleotide binding] 568706011617 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 568706011619 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 568706011620 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 568706011621 catalytic residue [active] 568706011622 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 568706011624 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706011625 Winged helix-turn helix; Region: HTH_29; pfam13551 568706011626 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706011627 Integrase core domain; Region: rve; pfam00665 568706011628 Integrase core domain; Region: rve_3; pfam13683 568706011630 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706011631 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 568706011632 putative dimerization interface [polypeptide binding]; other site 568706011633 putative substrate binding pocket [chemical binding]; other site 568706011634 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 568706011635 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 568706011636 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 568706011637 putative active site [active] 568706011638 putative substrate binding site [chemical binding]; other site 568706011639 putative cosubstrate binding site; other site 568706011640 catalytic site [active] 568706011641 Predicted dehydrogenase [General function prediction only]; Region: COG0579 568706011642 hydroxyglutarate oxidase; Provisional; Region: PRK11728 568706011643 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 568706011644 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 568706011645 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 568706011646 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 568706011647 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 568706011648 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 568706011649 putative active site pocket [active] 568706011650 dimerization interface [polypeptide binding]; other site 568706011651 putative catalytic residue [active] 568706011653 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 568706011654 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 568706011655 putative ATP binding site [chemical binding]; other site 568706011656 putative substrate interface [chemical binding]; other site 568706011657 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 568706011658 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 568706011659 DNA-binding site [nucleotide binding]; DNA binding site 568706011660 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 568706011661 acyl-CoA synthetase; Validated; Region: PRK06164 568706011662 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 568706011663 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 568706011664 AMP binding site [chemical binding]; other site 568706011665 active site 568706011666 acyl-activating enzyme (AAE) consensus motif; other site 568706011667 CoA binding site [chemical binding]; other site 568706011668 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706011669 short chain dehydrogenase; Provisional; Region: PRK07577 568706011670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 568706011671 NAD(P) binding site [chemical binding]; other site 568706011672 active site 568706011673 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706011674 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706011675 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706011676 hypothetical protein; Provisional; Region: PRK07546 568706011677 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 568706011678 substrate-cofactor binding pocket; other site 568706011679 aminodeoxychorismate synthase; Provisional; Region: PRK07508 568706011680 chorismate binding enzyme; Region: Chorismate_bind; cl10555 568706011681 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 568706011682 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706011683 Walker A/P-loop; other site 568706011684 ATP binding site [chemical binding]; other site 568706011685 Q-loop/lid; other site 568706011686 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706011687 ABC transporter signature motif; other site 568706011688 Walker B; other site 568706011689 D-loop; other site 568706011690 H-loop/switch region; other site 568706011691 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706011692 Walker A/P-loop; other site 568706011693 ATP binding site [chemical binding]; other site 568706011694 Q-loop/lid; other site 568706011695 ABC transporter signature motif; other site 568706011696 Walker B; other site 568706011697 D-loop; other site 568706011698 H-loop/switch region; other site 568706011699 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 568706011700 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 568706011701 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 568706011702 Walker A/P-loop; other site 568706011703 ATP binding site [chemical binding]; other site 568706011704 Q-loop/lid; other site 568706011705 ABC transporter signature motif; other site 568706011706 Walker B; other site 568706011707 D-loop; other site 568706011708 H-loop/switch region; other site 568706011710 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 568706011711 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 568706011712 active site 568706011713 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 568706011714 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 568706011716 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 568706011717 EamA-like transporter family; Region: EamA; pfam00892 568706011718 EamA-like transporter family; Region: EamA; pfam00892 568706011720 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 568706011721 Isochorismatase family; Region: Isochorismatase; pfam00857 568706011722 catalytic triad [active] 568706011723 dimer interface [polypeptide binding]; other site 568706011724 conserved cis-peptide bond; other site 568706011725 lipoprotein; Provisional; Region: PRK10540 568706011726 Transposase; Region: DEDD_Tnp_IS110; pfam01548 568706011727 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 568706011728 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 568706011729 cell division topological specificity factor MinE; Provisional; Region: PRK13989 568706011730 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 568706011731 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 568706011732 Switch I; other site 568706011733 Switch II; other site 568706011734 septum formation inhibitor; Provisional; Region: minC; PRK00030 568706011735 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 568706011736 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 568706011737 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 568706011738 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 568706011739 active site 568706011740 HIGH motif; other site 568706011741 nucleotide binding site [chemical binding]; other site 568706011742 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 568706011743 KMSKS motif; other site 568706011744 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 568706011745 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 568706011747 sensor protein RstB; Provisional; Region: PRK10604 568706011748 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 568706011749 ATP binding site [chemical binding]; other site 568706011750 Mg2+ binding site [ion binding]; other site 568706011751 G-X-G motif; other site 568706011752 osmolarity response regulator; Provisional; Region: ompR; PRK09468 568706011753 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 568706011754 active site 568706011755 phosphorylation site [posttranslational modification] 568706011756 intermolecular recognition site; other site 568706011757 dimerization interface [polypeptide binding]; other site 568706011758 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 568706011759 DNA binding site [nucleotide binding] 568706011761 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706011762 Winged helix-turn helix; Region: HTH_29; pfam13551 568706011763 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706011764 Integrase core domain; Region: rve; pfam00665 568706011765 Integrase core domain; Region: rve_3; pfam13683 568706011766 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 568706011767 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 568706011768 ATP binding site [chemical binding]; other site 568706011769 putative Mg++ binding site [ion binding]; other site 568706011770 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 568706011771 nucleotide binding region [chemical binding]; other site 568706011772 ATP-binding site [chemical binding]; other site 568706011773 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 568706011774 HRDC domain; Region: HRDC; pfam00570 568706011775 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 568706011776 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 568706011777 Walker A motif; other site 568706011778 ATP binding site [chemical binding]; other site 568706011779 Walker B motif; other site 568706011780 arginine finger; other site 568706011781 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 568706011782 serine racemase; Region: PLN02970 568706011783 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 568706011784 tetramer interface [polypeptide binding]; other site 568706011785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706011786 catalytic residue [active] 568706011787 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 568706011788 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 568706011789 putative NAD(P) binding site [chemical binding]; other site 568706011790 active site 568706011791 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 568706011792 RuvA N terminal domain; Region: RuvA_N; pfam01330 568706011793 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 568706011794 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 568706011795 active site 568706011796 putative DNA-binding cleft [nucleotide binding]; other site 568706011797 dimer interface [polypeptide binding]; other site 568706011798 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 568706011799 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 568706011800 purine monophosphate binding site [chemical binding]; other site 568706011801 dimer interface [polypeptide binding]; other site 568706011802 putative catalytic residues [active] 568706011803 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 568706011804 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 568706011805 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 568706011806 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 568706011807 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 568706011808 FMN binding site [chemical binding]; other site 568706011809 active site 568706011810 catalytic residues [active] 568706011811 substrate binding site [chemical binding]; other site 568706011812 hypothetical protein; Provisional; Region: PRK06996 568706011813 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 568706011814 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 568706011815 proline aminopeptidase P II; Provisional; Region: PRK10879 568706011816 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 568706011817 active site 568706011818 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 568706011819 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 568706011820 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 568706011821 trimer interface [polypeptide binding]; other site 568706011822 eyelet of channel; other site 568706011823 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 568706011824 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 568706011825 active site 568706011826 tetramer interface; other site 568706011827 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 568706011828 Peptidase family M48; Region: Peptidase_M48; cl12018 568706011829 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 568706011830 SnoaL-like domain; Region: SnoaL_3; pfam13474 568706011831 SnoaL-like domain; Region: SnoaL_2; pfam12680 568706011832 Zinc-finger domain; Region: zf-CHCC; cl01821 568706011833 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 568706011834 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 568706011835 homodimer interface [polypeptide binding]; other site 568706011836 substrate-cofactor binding pocket; other site 568706011837 catalytic residue [active] 568706011838 AzlC protein; Region: AzlC; pfam03591 568706011839 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 568706011840 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 568706011841 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 568706011842 ATP binding site [chemical binding]; other site 568706011843 Mg++ binding site [ion binding]; other site 568706011844 motif III; other site 568706011845 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 568706011846 nucleotide binding region [chemical binding]; other site 568706011847 ATP-binding site [chemical binding]; other site 568706011848 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 568706011849 catalytic residues [active] 568706011850 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 568706011851 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706011852 Winged helix-turn helix; Region: HTH_29; pfam13551 568706011853 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706011854 Integrase core domain; Region: rve; pfam00665 568706011855 Integrase core domain; Region: rve_3; pfam13683 568706011856 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 568706011857 competence damage-inducible protein A; Provisional; Region: PRK01215 568706011858 putative MPT binding site; other site 568706011859 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 568706011860 Transcriptional regulator [Transcription]; Region: IclR; COG1414 568706011861 Bacterial transcriptional regulator; Region: IclR; pfam01614 568706011862 Rho-activating domain of cytotoxic necrotizing factor; Region: CNF1; pfam05785 568706011863 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 568706011864 Phasin protein; Region: Phasin_2; pfam09361 568706011865 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 568706011866 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 568706011867 quinone interaction residues [chemical binding]; other site 568706011868 active site 568706011869 catalytic residues [active] 568706011870 FMN binding site [chemical binding]; other site 568706011871 substrate binding site [chemical binding]; other site 568706011872 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 568706011873 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 568706011874 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 568706011876 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 568706011877 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 568706011878 nudix motif; other site 568706011879 Transcriptional regulator [Transcription]; Region: LysR; COG0583 568706011880 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 568706011881 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 568706011882 putative effector binding pocket; other site 568706011883 dimerization interface [polypeptide binding]; other site 568706011884 DoxX; Region: DoxX; pfam07681 568706011885 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 568706011887 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706011888 Winged helix-turn helix; Region: HTH_29; pfam13551 568706011889 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706011890 Integrase core domain; Region: rve; pfam00665 568706011891 Integrase core domain; Region: rve_3; pfam13683 568706011892 HI0933-like protein; Region: HI0933_like; pfam03486 568706011893 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 568706011894 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 568706011895 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 568706011896 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 568706011897 catalytic residue [active] 568706011898 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 568706011900 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 568706011901 active site 568706011902 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 568706011903 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 568706011904 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 568706011905 trimer interface [polypeptide binding]; other site 568706011906 active site 568706011907 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 568706011908 Family of unknown function (DUF490); Region: DUF490; pfam04357 568706011909 Surface antigen; Region: Bac_surface_Ag; pfam01103 568706011910 Domain of unknown function DUF59; Region: DUF59; cl00941 568706011911 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 568706011912 Walker A motif; other site 568706011913 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 568706011914 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 568706011915 active site 568706011916 HIGH motif; other site 568706011917 KMSKS motif; other site 568706011918 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 568706011919 tRNA binding surface [nucleotide binding]; other site 568706011920 anticodon binding site; other site 568706011921 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 568706011922 dimer interface [polypeptide binding]; other site 568706011923 putative tRNA-binding site [nucleotide binding]; other site 568706011924 rhodanese superfamily protein; Provisional; Region: PRK05320 568706011925 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 568706011926 active site residue [active] 568706011927 META domain; Region: META; pfam03724 568706011928 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 568706011929 META domain; Region: META; pfam03724 568706011931 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 568706011932 Winged helix-turn helix; Region: HTH_29; pfam13551 568706011933 Helix-turn-helix domain; Region: HTH_38; pfam13936 568706011934 Integrase core domain; Region: rve; pfam00665 568706011935 Integrase core domain; Region: rve_3; pfam13683 568706011936 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 568706011937 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 568706011938 tetramer interface [polypeptide binding]; other site 568706011939 heme binding pocket [chemical binding]; other site 568706011940 NADPH binding site [chemical binding]; other site 568706011941 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 568706011942 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706011943 putative PBP binding loops; other site 568706011944 ABC-ATPase subunit interface; other site 568706011945 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 568706011946 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 568706011947 Walker A/P-loop; other site 568706011948 ATP binding site [chemical binding]; other site 568706011949 Q-loop/lid; other site 568706011950 ABC transporter signature motif; other site 568706011951 Walker B; other site 568706011952 D-loop; other site 568706011953 H-loop/switch region; other site 568706011954 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 568706011955 NMT1-like family; Region: NMT1_2; pfam13379 568706011956 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 568706011957 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 568706011958 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 568706011959 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 568706011960 metal binding site [ion binding]; metal-binding site 568706011961 putative dimer interface [polypeptide binding]; other site 568706011962 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 568706011963 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 568706011964 Walker A/P-loop; other site 568706011965 ATP binding site [chemical binding]; other site 568706011966 Q-loop/lid; other site 568706011967 ABC transporter signature motif; other site 568706011968 Walker B; other site 568706011969 D-loop; other site 568706011970 H-loop/switch region; other site 568706011971 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 568706011972 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 568706011973 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 568706011974 Walker A/P-loop; other site 568706011975 ATP binding site [chemical binding]; other site 568706011976 Q-loop/lid; other site 568706011977 ABC transporter signature motif; other site 568706011978 Walker B; other site 568706011979 D-loop; other site 568706011980 H-loop/switch region; other site 568706011981 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 568706011982 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 568706011983 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706011984 dimer interface [polypeptide binding]; other site 568706011985 conserved gate region; other site 568706011986 putative PBP binding loops; other site 568706011987 ABC-ATPase subunit interface; other site 568706011988 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 568706011989 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 568706011990 dimer interface [polypeptide binding]; other site 568706011991 conserved gate region; other site 568706011992 ABC-ATPase subunit interface; other site 568706011993 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 568706011994 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 568706011995 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 568706011996 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 568706011997 trmE is a tRNA modification GTPase; Region: trmE; cd04164 568706011998 G1 box; other site 568706011999 GTP/Mg2+ binding site [chemical binding]; other site 568706012000 Switch I region; other site 568706012001 G2 box; other site 568706012002 Switch II region; other site 568706012003 G3 box; other site 568706012004 G4 box; other site 568706012005 G5 box; other site 568706012006 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 568706012007 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 568706012008 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 568706012009 active site 568706012010 phosphorylation site [posttranslational modification] 568706012011 intermolecular recognition site; other site 568706012012 dimerization interface [polypeptide binding]; other site 568706012013 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 568706012014 DNA binding site [nucleotide binding] 568706012015 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 568706012016 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 568706012017 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 568706012018 dimer interface [polypeptide binding]; other site 568706012019 phosphorylation site [posttranslational modification] 568706012020 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 568706012021 ATP binding site [chemical binding]; other site 568706012022 Mg2+ binding site [ion binding]; other site 568706012023 G-X-G motif; other site 568706012024 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 568706012025 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 568706012026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 568706012027 methionine aminotransferase; Validated; Region: PRK09082 568706012028 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 568706012029 pyridoxal 5'-phosphate binding site [chemical binding]; other site 568706012030 homodimer interface [polypeptide binding]; other site 568706012031 catalytic residue [active] 568706012032 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 568706012033 DNA-binding site [nucleotide binding]; DNA binding site 568706012034 RNA-binding motif; other site