-- dump date 20140618_190451 -- class Genbank::misc_feature -- table misc_feature_note -- id note 945556000001 Initiator Replication protein; Region: Rep_3; pfam01051 945556000002 Helix-turn-helix domain; Region: HTH_17; cl17695 945556000003 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 945556000004 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 945556000005 non-specific DNA binding site [nucleotide binding]; other site 945556000006 salt bridge; other site 945556000007 sequence-specific DNA binding site [nucleotide binding]; other site 945556000008 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 945556000009 Sel1-like repeats; Region: SEL1; smart00671 945556000010 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 945556000011 Nicotianamine synthase protein; Region: NAS; cl17658 945556000012 DnaA N-terminal domain; Region: DnaA_N; pfam11638 945556000013 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 945556000014 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 945556000015 Walker A motif; other site 945556000016 ATP binding site [chemical binding]; other site 945556000017 Walker B motif; other site 945556000018 arginine finger; other site 945556000019 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 945556000020 DnaA box-binding interface [nucleotide binding]; other site 945556000021 DNA polymerase III subunit beta; Validated; Region: PRK05643 945556000022 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 945556000023 putative DNA binding surface [nucleotide binding]; other site 945556000024 dimer interface [polypeptide binding]; other site 945556000025 beta-clamp/clamp loader binding surface; other site 945556000026 beta-clamp/translesion DNA polymerase binding surface; other site 945556000027 recombination protein F; Reviewed; Region: recF; PRK00064 945556000028 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 945556000029 Walker A/P-loop; other site 945556000030 ATP binding site [chemical binding]; other site 945556000031 Q-loop/lid; other site 945556000032 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 945556000033 ABC transporter signature motif; other site 945556000034 Walker B; other site 945556000035 D-loop; other site 945556000036 H-loop/switch region; other site 945556000037 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 945556000038 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 945556000039 ATP binding site [chemical binding]; other site 945556000040 Mg2+ binding site [ion binding]; other site 945556000041 G-X-G motif; other site 945556000042 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 945556000043 anchoring element; other site 945556000044 dimer interface [polypeptide binding]; other site 945556000045 ATP binding site [chemical binding]; other site 945556000046 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 945556000047 active site 945556000048 putative metal-binding site [ion binding]; other site 945556000049 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 945556000050 Cytochrome b562; Region: Cytochrom_B562; pfam07361 945556000051 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 945556000052 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 945556000053 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 945556000054 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 945556000055 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 945556000056 ABC transporter; Region: ABC_tran_2; pfam12848 945556000057 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 945556000058 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 945556000059 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 945556000060 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 945556000061 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 945556000062 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 945556000063 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 945556000064 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 945556000065 active site 945556000066 HIGH motif; other site 945556000067 dimer interface [polypeptide binding]; other site 945556000068 KMSKS motif; other site 945556000069 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 945556000070 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 945556000071 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 945556000072 Predicted flavoprotein [General function prediction only]; Region: COG0431 945556000073 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 945556000074 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 945556000075 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 945556000076 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 945556000077 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 945556000078 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 945556000079 active site 945556000080 HIGH motif; other site 945556000081 nucleotide binding site [chemical binding]; other site 945556000082 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 945556000083 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 945556000084 active site 945556000085 KMSKS motif; other site 945556000086 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 945556000087 tRNA binding surface [nucleotide binding]; other site 945556000088 anticodon binding site; other site 945556000089 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 945556000090 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 945556000091 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 945556000092 active site 945556000093 Riboflavin kinase; Region: Flavokinase; smart00904 945556000094 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 945556000095 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 945556000096 gating phenylalanine in ion channel; other site 945556000097 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 945556000098 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 945556000099 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556000100 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 945556000101 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 945556000102 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 945556000103 Walker A/P-loop; other site 945556000104 ATP binding site [chemical binding]; other site 945556000105 Q-loop/lid; other site 945556000106 ABC transporter signature motif; other site 945556000107 Walker B; other site 945556000108 D-loop; other site 945556000109 H-loop/switch region; other site 945556000110 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 945556000111 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556000112 putative PBP binding loops; other site 945556000113 dimer interface [polypeptide binding]; other site 945556000114 ABC-ATPase subunit interface; other site 945556000115 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 945556000116 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 945556000117 active site 945556000118 dimer interface [polypeptide binding]; other site 945556000119 non-prolyl cis peptide bond; other site 945556000120 insertion regions; other site 945556000121 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 945556000122 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 945556000123 substrate binding pocket [chemical binding]; other site 945556000124 membrane-bound complex binding site; other site 945556000125 hinge residues; other site 945556000126 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 945556000127 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 945556000128 substrate binding pocket [chemical binding]; other site 945556000129 membrane-bound complex binding site; other site 945556000130 hinge residues; other site 945556000131 N-acetylglutamate synthase; Validated; Region: PRK05279 945556000132 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 945556000133 putative feedback inhibition sensing region; other site 945556000134 putative nucleotide binding site [chemical binding]; other site 945556000135 putative substrate binding site [chemical binding]; other site 945556000136 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 945556000137 Coenzyme A binding pocket [chemical binding]; other site 945556000138 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 945556000139 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 945556000140 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 945556000141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556000142 NAD(P) binding site [chemical binding]; other site 945556000143 active site 945556000144 phosphoglycolate phosphatase; Provisional; Region: PRK13222 945556000145 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 945556000146 active site 945556000147 motif I; other site 945556000148 motif II; other site 945556000149 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 945556000150 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 945556000151 S-adenosylmethionine binding site [chemical binding]; other site 945556000152 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 945556000153 catalytic residues [active] 945556000154 hinge region; other site 945556000155 alpha helical domain; other site 945556000156 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556000157 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556000158 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 945556000159 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556000160 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 945556000161 FMN reductase; Validated; Region: fre; PRK08051 945556000162 FAD binding pocket [chemical binding]; other site 945556000163 FAD binding motif [chemical binding]; other site 945556000164 phosphate binding motif [ion binding]; other site 945556000165 beta-alpha-beta structure motif; other site 945556000166 NAD binding pocket [chemical binding]; other site 945556000167 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 945556000168 catalytic loop [active] 945556000169 iron binding site [ion binding]; other site 945556000170 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 945556000171 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 945556000172 putative di-iron ligands [ion binding]; other site 945556000173 ribonuclease PH; Reviewed; Region: rph; PRK00173 945556000174 Ribonuclease PH; Region: RNase_PH_bact; cd11362 945556000175 hexamer interface [polypeptide binding]; other site 945556000176 active site 945556000177 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 945556000178 Phosphoesterase family; Region: Phosphoesterase; pfam04185 945556000179 Domain of unknown function (DUF756); Region: DUF756; pfam05506 945556000180 Domain of unknown function (DUF756); Region: DUF756; pfam05506 945556000181 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 945556000182 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 945556000183 dimerization interface [polypeptide binding]; other site 945556000184 active site 945556000185 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 945556000186 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 945556000187 amidase catalytic site [active] 945556000188 Zn binding residues [ion binding]; other site 945556000189 substrate binding site [chemical binding]; other site 945556000190 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 945556000191 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 945556000192 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 945556000193 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 945556000194 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 945556000195 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 945556000196 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 945556000197 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 945556000198 tyrosine kinase; Provisional; Region: PRK11519 945556000199 Chain length determinant protein; Region: Wzz; pfam02706 945556000200 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 945556000201 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 945556000202 Low molecular weight phosphatase family; Region: LMWPc; cd00115 945556000203 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 945556000204 active site 945556000205 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 945556000206 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 945556000207 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 945556000208 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 945556000209 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 945556000210 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 945556000211 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 945556000212 NAD binding site [chemical binding]; other site 945556000213 substrate binding site [chemical binding]; other site 945556000214 homodimer interface [polypeptide binding]; other site 945556000215 active site 945556000216 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 945556000217 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 945556000218 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 945556000219 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 945556000220 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 945556000221 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 945556000222 NAD(P) binding site [chemical binding]; other site 945556000223 homodimer interface [polypeptide binding]; other site 945556000224 substrate binding site [chemical binding]; other site 945556000225 active site 945556000226 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 945556000227 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556000228 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 945556000229 NAD(P) binding site [chemical binding]; other site 945556000230 active site 945556000231 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 945556000232 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 945556000233 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 945556000234 active site 945556000235 homodimer interface [polypeptide binding]; other site 945556000236 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 945556000237 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 945556000238 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 945556000239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556000240 NAD(P) binding site [chemical binding]; other site 945556000241 active site 945556000242 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 945556000243 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 945556000244 Mg++ binding site [ion binding]; other site 945556000245 putative catalytic motif [active] 945556000246 putative substrate binding site [chemical binding]; other site 945556000247 Bacterial sugar transferase; Region: Bac_transf; pfam02397 945556000248 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 945556000249 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 945556000250 active site 945556000251 tetramer interface; other site 945556000252 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 945556000253 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 945556000254 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 945556000255 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 945556000256 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 945556000257 active site 945556000258 dimer interface [polypeptide binding]; other site 945556000259 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 945556000260 dimer interface [polypeptide binding]; other site 945556000261 active site 945556000262 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 945556000263 UDP-glucose 4-epimerase; Region: PLN02240 945556000264 NAD binding site [chemical binding]; other site 945556000265 homodimer interface [polypeptide binding]; other site 945556000266 active site 945556000267 substrate binding site [chemical binding]; other site 945556000268 phosphomannomutase CpsG; Provisional; Region: PRK15414 945556000269 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 945556000270 active site 945556000271 substrate binding site [chemical binding]; other site 945556000272 metal binding site [ion binding]; metal-binding site 945556000273 L-lactate permease; Provisional; Region: PRK10420 945556000274 glycolate transporter; Provisional; Region: PRK09695 945556000275 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 945556000276 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556000277 DNA-binding site [nucleotide binding]; DNA binding site 945556000278 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 945556000279 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 945556000280 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 945556000281 active site 945556000282 substrate binding site [chemical binding]; other site 945556000283 FMN binding site [chemical binding]; other site 945556000284 putative catalytic residues [active] 945556000285 D-lactate dehydrogenase; Provisional; Region: PRK11183 945556000286 FAD binding domain; Region: FAD_binding_4; pfam01565 945556000287 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 945556000288 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 945556000289 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 945556000290 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556000291 homodimer interface [polypeptide binding]; other site 945556000292 catalytic residue [active] 945556000293 Transcriptional regulators [Transcription]; Region: GntR; COG1802 945556000294 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556000295 DNA-binding site [nucleotide binding]; DNA binding site 945556000296 FCD domain; Region: FCD; pfam07729 945556000297 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 945556000298 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 945556000299 tetramer interface [polypeptide binding]; other site 945556000300 active site 945556000301 Mg2+/Mn2+ binding site [ion binding]; other site 945556000302 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 945556000303 methylcitrate synthase; Provisional; Region: PRK12351 945556000304 oxalacetate binding site [chemical binding]; other site 945556000305 citrylCoA binding site [chemical binding]; other site 945556000306 coenzyme A binding site [chemical binding]; other site 945556000307 catalytic triad [active] 945556000308 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 945556000309 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 945556000310 substrate binding site [chemical binding]; other site 945556000311 ligand binding site [chemical binding]; other site 945556000312 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 945556000313 substrate binding site [chemical binding]; other site 945556000314 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 945556000315 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 945556000316 Sel1-like repeats; Region: SEL1; smart00671 945556000317 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 945556000318 binding surface 945556000319 TPR motif; other site 945556000320 Sel1-like repeats; Region: SEL1; smart00671 945556000321 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 945556000322 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 945556000323 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 945556000324 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 945556000325 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 945556000326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556000327 NAD(P) binding site [chemical binding]; other site 945556000328 active site 945556000329 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556000330 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556000331 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 945556000332 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 945556000333 putative substrate translocation pore; other site 945556000334 Predicted membrane protein [Function unknown]; Region: COG4420 945556000335 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 945556000336 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 945556000337 active site 945556000338 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 945556000339 SnoaL-like domain; Region: SnoaL_2; pfam12680 945556000340 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 945556000341 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 945556000342 N-terminal plug; other site 945556000343 ligand-binding site [chemical binding]; other site 945556000344 Predicted membrane protein [Function unknown]; Region: COG3503 945556000345 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 945556000346 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 945556000347 putative DNA binding site [nucleotide binding]; other site 945556000348 putative Zn2+ binding site [ion binding]; other site 945556000349 AsnC family; Region: AsnC_trans_reg; pfam01037 945556000350 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 945556000351 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 945556000352 mRNA stabilisation; Region: mRNA_stabil; pfam13929 945556000353 alanine racemase; Reviewed; Region: dadX; PRK03646 945556000354 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 945556000355 active site 945556000356 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 945556000357 substrate binding site [chemical binding]; other site 945556000358 catalytic residues [active] 945556000359 dimer interface [polypeptide binding]; other site 945556000360 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 945556000361 homotrimer interaction site [polypeptide binding]; other site 945556000362 putative active site [active] 945556000363 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 945556000364 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 945556000365 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556000366 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556000367 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 945556000368 dimerization interface [polypeptide binding]; other site 945556000369 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 945556000370 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 945556000371 tetrameric interface [polypeptide binding]; other site 945556000372 NAD binding site [chemical binding]; other site 945556000373 catalytic residues [active] 945556000374 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 945556000375 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 945556000376 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 945556000377 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 945556000378 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 945556000379 acyl-activating enzyme (AAE) consensus motif; other site 945556000380 AMP binding site [chemical binding]; other site 945556000381 active site 945556000382 CoA binding site [chemical binding]; other site 945556000383 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 945556000384 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556000385 active site 945556000386 enoyl-CoA hydratase; Provisional; Region: PRK05862 945556000387 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 945556000388 substrate binding site [chemical binding]; other site 945556000389 oxyanion hole (OAH) forming residues; other site 945556000390 trimer interface [polypeptide binding]; other site 945556000391 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 945556000392 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 945556000393 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 945556000394 substrate binding site [chemical binding]; other site 945556000395 oxyanion hole (OAH) forming residues; other site 945556000396 trimer interface [polypeptide binding]; other site 945556000397 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 945556000398 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 945556000399 metabolite-proton symporter; Region: 2A0106; TIGR00883 945556000400 putative substrate translocation pore; other site 945556000401 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 945556000402 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 945556000403 dimer interface [polypeptide binding]; other site 945556000404 active site 945556000405 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 945556000406 catalytic residues [active] 945556000407 substrate binding site [chemical binding]; other site 945556000408 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 945556000409 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 945556000410 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 945556000411 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 945556000412 acyl-activating enzyme (AAE) consensus motif; other site 945556000413 acyl-activating enzyme (AAE) consensus motif; other site 945556000414 AMP binding site [chemical binding]; other site 945556000415 active site 945556000416 CoA binding site [chemical binding]; other site 945556000417 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 945556000418 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 945556000419 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 945556000420 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 945556000421 substrate binding site [chemical binding]; other site 945556000422 hexamer interface [polypeptide binding]; other site 945556000423 metal binding site [ion binding]; metal-binding site 945556000424 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 945556000425 substrate binding site [chemical binding]; other site 945556000426 active site 945556000427 Autoinducer synthetase; Region: Autoind_synth; cl17404 945556000428 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 945556000429 Autoinducer binding domain; Region: Autoind_bind; pfam03472 945556000430 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 945556000431 DNA binding residues [nucleotide binding] 945556000432 dimerization interface [polypeptide binding]; other site 945556000433 acyl-CoA synthetase; Validated; Region: PRK05850 945556000434 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 945556000435 acyl-activating enzyme (AAE) consensus motif; other site 945556000436 active site 945556000437 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 945556000438 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 945556000439 active site 945556000440 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 945556000441 Condensation domain; Region: Condensation; pfam00668 945556000442 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 945556000443 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 945556000444 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 945556000445 acyl-activating enzyme (AAE) consensus motif; other site 945556000446 AMP binding site [chemical binding]; other site 945556000447 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 945556000448 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 945556000449 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 945556000450 hydrophobic ligand binding site; other site 945556000451 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 945556000452 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 945556000453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556000454 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 945556000455 NAD(P) binding site [chemical binding]; other site 945556000456 active site 945556000457 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 945556000458 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 945556000459 catalytic site [active] 945556000460 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 945556000461 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 945556000462 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 945556000463 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 945556000464 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 945556000465 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 945556000466 P-loop; other site 945556000467 Magnesium ion binding site [ion binding]; other site 945556000468 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 945556000469 Magnesium ion binding site [ion binding]; other site 945556000470 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 945556000471 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 945556000472 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 945556000473 Predicted membrane protein [Function unknown]; Region: COG2259 945556000474 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 945556000475 GMP synthase; Reviewed; Region: guaA; PRK00074 945556000476 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 945556000477 AMP/PPi binding site [chemical binding]; other site 945556000478 candidate oxyanion hole; other site 945556000479 catalytic triad [active] 945556000480 potential glutamine specificity residues [chemical binding]; other site 945556000481 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 945556000482 ATP Binding subdomain [chemical binding]; other site 945556000483 Ligand Binding sites [chemical binding]; other site 945556000484 Dimerization subdomain; other site 945556000485 aminoglycoside resistance protein; Provisional; Region: PRK13746 945556000486 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 945556000487 active site 945556000488 NTP binding site [chemical binding]; other site 945556000489 metal binding triad [ion binding]; metal-binding site 945556000490 antibiotic binding site [chemical binding]; other site 945556000491 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 945556000492 Predicted transcriptional regulators [Transcription]; Region: COG1695 945556000493 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 945556000494 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 945556000495 Pirin; Region: Pirin; pfam02678 945556000496 Pirin-related protein [General function prediction only]; Region: COG1741 945556000497 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 945556000498 OsmC-like protein; Region: OsmC; pfam02566 945556000499 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 945556000500 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 945556000501 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 945556000502 putative N-terminal domain interface [polypeptide binding]; other site 945556000503 putative dimer interface [polypeptide binding]; other site 945556000504 putative substrate binding pocket (H-site) [chemical binding]; other site 945556000505 Sporulation related domain; Region: SPOR; pfam05036 945556000506 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 945556000507 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 945556000508 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 945556000509 active site 945556000510 HIGH motif; other site 945556000511 nucleotide binding site [chemical binding]; other site 945556000512 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 945556000513 KMSK motif region; other site 945556000514 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 945556000515 tRNA binding surface [nucleotide binding]; other site 945556000516 anticodon binding site; other site 945556000517 malate dehydrogenase; Provisional; Region: PRK13529 945556000518 Malic enzyme, N-terminal domain; Region: malic; pfam00390 945556000519 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 945556000520 NAD(P) binding site [chemical binding]; other site 945556000521 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 945556000522 LysE type translocator; Region: LysE; cl00565 945556000523 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 945556000524 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 945556000525 ABC-ATPase subunit interface; other site 945556000526 dimer interface [polypeptide binding]; other site 945556000527 putative PBP binding regions; other site 945556000528 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 945556000529 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 945556000530 Walker A/P-loop; other site 945556000531 ATP binding site [chemical binding]; other site 945556000532 Q-loop/lid; other site 945556000533 ABC transporter signature motif; other site 945556000534 Walker B; other site 945556000535 D-loop; other site 945556000536 H-loop/switch region; other site 945556000537 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 945556000538 metal binding site 2 [ion binding]; metal-binding site 945556000539 putative DNA binding helix; other site 945556000540 metal binding site 1 [ion binding]; metal-binding site 945556000541 dimer interface [polypeptide binding]; other site 945556000542 structural Zn2+ binding site [ion binding]; other site 945556000543 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 945556000544 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 945556000545 intersubunit interface [polypeptide binding]; other site 945556000546 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 945556000547 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 945556000548 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 945556000549 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 945556000550 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 945556000551 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 945556000552 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 945556000553 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 945556000554 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 945556000555 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 945556000556 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 945556000557 Walker A motif; other site 945556000558 ATP binding site [chemical binding]; other site 945556000559 Walker B motif; other site 945556000560 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 945556000561 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 945556000562 core domain interface [polypeptide binding]; other site 945556000563 delta subunit interface [polypeptide binding]; other site 945556000564 epsilon subunit interface [polypeptide binding]; other site 945556000565 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 945556000566 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 945556000567 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 945556000568 alpha subunit interaction interface [polypeptide binding]; other site 945556000569 Walker A motif; other site 945556000570 ATP binding site [chemical binding]; other site 945556000571 Walker B motif; other site 945556000572 inhibitor binding site; inhibition site 945556000573 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 945556000574 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 945556000575 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 945556000576 gamma subunit interface [polypeptide binding]; other site 945556000577 epsilon subunit interface [polypeptide binding]; other site 945556000578 LBP interface [polypeptide binding]; other site 945556000579 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 945556000580 catalytic residues [active] 945556000581 dimer interface [polypeptide binding]; other site 945556000582 Helix-turn-helix domain; Region: HTH_18; pfam12833 945556000583 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556000584 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 945556000585 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 945556000586 putative substrate translocation pore; other site 945556000587 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556000588 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556000589 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 945556000590 EamA-like transporter family; Region: EamA; pfam00892 945556000591 EamA-like transporter family; Region: EamA; pfam00892 945556000592 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 945556000593 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 945556000594 DNA protecting protein DprA; Region: dprA; TIGR00732 945556000595 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 945556000596 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 945556000597 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 945556000598 active site 945556000599 catalytic residues [active] 945556000600 metal binding site [ion binding]; metal-binding site 945556000601 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 945556000602 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 945556000603 N-terminal plug; other site 945556000604 ligand-binding site [chemical binding]; other site 945556000605 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 945556000606 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556000607 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556000608 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 945556000609 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 945556000610 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 945556000611 dimer interface [polypeptide binding]; other site 945556000612 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556000613 catalytic residue [active] 945556000614 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 945556000615 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 945556000616 N-acetyl-D-glucosamine binding site [chemical binding]; other site 945556000617 catalytic residue [active] 945556000618 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 945556000619 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 945556000620 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 945556000621 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 945556000622 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 945556000623 DNA binding residues [nucleotide binding] 945556000624 putative dimer interface [polypeptide binding]; other site 945556000625 putative metal binding residues [ion binding]; other site 945556000626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 945556000627 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 945556000628 hypothetical protein; Provisional; Region: PRK01254 945556000629 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 945556000630 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 945556000631 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 945556000632 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 945556000633 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 945556000634 homotrimer interaction site [polypeptide binding]; other site 945556000635 putative active site [active] 945556000636 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 945556000637 active site 945556000638 DNA polymerase IV; Validated; Region: PRK02406 945556000639 DNA binding site [nucleotide binding] 945556000640 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 945556000641 active site 945556000642 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 945556000643 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 945556000644 putative transporter; Provisional; Region: PRK10504 945556000645 putative substrate translocation pore; other site 945556000646 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 945556000647 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 945556000648 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 945556000649 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 945556000650 Transporter associated domain; Region: CorC_HlyC; smart01091 945556000651 hypothetical protein; Provisional; Region: PRK01752 945556000652 SEC-C motif; Region: SEC-C; pfam02810 945556000653 Predicted membrane protein [Function unknown]; Region: COG2860 945556000654 UPF0126 domain; Region: UPF0126; pfam03458 945556000655 UPF0126 domain; Region: UPF0126; pfam03458 945556000656 benzoate transport; Region: 2A0115; TIGR00895 945556000657 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 945556000658 putative substrate translocation pore; other site 945556000659 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 945556000660 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 945556000661 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 945556000662 CAP-like domain; other site 945556000663 active site 945556000664 primary dimer interface [polypeptide binding]; other site 945556000665 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 945556000666 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 945556000667 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 945556000668 acyl-activating enzyme (AAE) consensus motif; other site 945556000669 putative AMP binding site [chemical binding]; other site 945556000670 putative active site [active] 945556000671 putative CoA binding site [chemical binding]; other site 945556000672 MAPEG family; Region: MAPEG; cl09190 945556000673 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 945556000674 dimer interface [polypeptide binding]; other site 945556000675 substrate binding site [chemical binding]; other site 945556000676 metal binding sites [ion binding]; metal-binding site 945556000677 outer membrane porin, OprD family; Region: OprD; pfam03573 945556000678 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 945556000679 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 945556000680 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 945556000681 inhibitor site; inhibition site 945556000682 active site 945556000683 dimer interface [polypeptide binding]; other site 945556000684 catalytic residue [active] 945556000685 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 945556000686 intersubunit interface [polypeptide binding]; other site 945556000687 active site 945556000688 Zn2+ binding site [ion binding]; other site 945556000689 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556000690 DNA-binding site [nucleotide binding]; DNA binding site 945556000691 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 945556000692 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 945556000693 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556000694 homodimer interface [polypeptide binding]; other site 945556000695 catalytic residue [active] 945556000696 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 945556000697 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 945556000698 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 945556000699 Walker A motif; other site 945556000700 ATP binding site [chemical binding]; other site 945556000701 Walker B motif; other site 945556000702 arginine finger; other site 945556000703 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 945556000704 Membrane fusogenic activity; Region: BMFP; pfam04380 945556000705 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 945556000706 Nitrogen regulatory protein P-II; Region: P-II; smart00938 945556000707 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 945556000708 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 945556000709 ATP cone domain; Region: ATP-cone; pfam03477 945556000710 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 945556000711 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 945556000712 catalytic motif [active] 945556000713 Zn binding site [ion binding]; other site 945556000714 RibD C-terminal domain; Region: RibD_C; cl17279 945556000715 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 945556000716 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 945556000717 Lumazine binding domain; Region: Lum_binding; pfam00677 945556000718 Lumazine binding domain; Region: Lum_binding; pfam00677 945556000719 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 945556000720 multifunctional aminopeptidase A; Provisional; Region: PRK00913 945556000721 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 945556000722 interface (dimer of trimers) [polypeptide binding]; other site 945556000723 Substrate-binding/catalytic site; other site 945556000724 Zn-binding sites [ion binding]; other site 945556000725 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 945556000726 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 945556000727 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 945556000728 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 945556000729 phosphoglyceromutase; Provisional; Region: PRK05434 945556000730 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 945556000731 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 945556000732 C-terminal peptidase (prc); Region: prc; TIGR00225 945556000733 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; cd00136 945556000734 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 945556000735 Catalytic dyad [active] 945556000736 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 945556000737 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 945556000738 active site 945556000739 phosphorylation site [posttranslational modification] 945556000740 intermolecular recognition site; other site 945556000741 dimerization interface [polypeptide binding]; other site 945556000742 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 945556000743 Walker A motif; other site 945556000744 ATP binding site [chemical binding]; other site 945556000745 Walker B motif; other site 945556000746 arginine finger; other site 945556000747 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 945556000748 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 945556000749 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 945556000750 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 945556000751 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 945556000752 dimer interface [polypeptide binding]; other site 945556000753 phosphorylation site [posttranslational modification] 945556000754 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 945556000755 ATP binding site [chemical binding]; other site 945556000756 Mg2+ binding site [ion binding]; other site 945556000757 G-X-G motif; other site 945556000758 response regulator; Provisional; Region: PRK09483 945556000759 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 945556000760 active site 945556000761 phosphorylation site [posttranslational modification] 945556000762 intermolecular recognition site; other site 945556000763 dimerization interface [polypeptide binding]; other site 945556000764 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 945556000765 DNA binding residues [nucleotide binding] 945556000766 dimerization interface [polypeptide binding]; other site 945556000767 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 945556000768 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 945556000769 threonine synthase; Reviewed; Region: PRK06721 945556000770 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 945556000771 homodimer interface [polypeptide binding]; other site 945556000772 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556000773 catalytic residue [active] 945556000774 homoserine dehydrogenase; Provisional; Region: PRK06349 945556000775 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 945556000776 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 945556000777 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 945556000778 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 945556000779 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 945556000780 dimerization domain [polypeptide binding]; other site 945556000781 dimer interface [polypeptide binding]; other site 945556000782 catalytic residues [active] 945556000783 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 945556000784 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 945556000785 active site 945556000786 Int/Topo IB signature motif; other site 945556000787 FeoA domain; Region: FeoA; pfam04023 945556000788 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 945556000789 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 945556000790 G1 box; other site 945556000791 GTP/Mg2+ binding site [chemical binding]; other site 945556000792 Switch I region; other site 945556000793 G2 box; other site 945556000794 G3 box; other site 945556000795 Switch II region; other site 945556000796 G4 box; other site 945556000797 G5 box; other site 945556000798 Nucleoside recognition; Region: Gate; pfam07670 945556000799 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 945556000800 Nucleoside recognition; Region: Gate; pfam07670 945556000801 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 945556000802 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 945556000803 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 945556000804 cell division protein FtsW; Region: ftsW; TIGR02614 945556000805 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 945556000806 active site 945556000807 KMSKS motif; other site 945556000808 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 945556000809 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 945556000810 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 945556000811 active site 945556000812 metal binding site [ion binding]; metal-binding site 945556000813 hexamer interface [polypeptide binding]; other site 945556000814 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 945556000815 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 945556000816 dimer interface [polypeptide binding]; other site 945556000817 ADP-ribose binding site [chemical binding]; other site 945556000818 active site 945556000819 nudix motif; other site 945556000820 metal binding site [ion binding]; metal-binding site 945556000821 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 945556000822 ThiC-associated domain; Region: ThiC-associated; pfam13667 945556000823 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 945556000824 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556000825 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556000826 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 945556000827 EamA-like transporter family; Region: EamA; pfam00892 945556000828 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 945556000829 transcriptional regulator PhoU; Provisional; Region: PRK11115 945556000830 PhoU domain; Region: PhoU; pfam01895 945556000831 PhoU domain; Region: PhoU; pfam01895 945556000832 oxidative damage protection protein; Provisional; Region: PRK05408 945556000833 argininosuccinate lyase; Provisional; Region: PRK00855 945556000834 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 945556000835 active sites [active] 945556000836 tetramer interface [polypeptide binding]; other site 945556000837 Histidine kinase; Region: His_kinase; pfam06580 945556000838 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 945556000839 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 945556000840 active site 945556000841 phosphorylation site [posttranslational modification] 945556000842 intermolecular recognition site; other site 945556000843 dimerization interface [polypeptide binding]; other site 945556000844 LytTr DNA-binding domain; Region: LytTR; smart00850 945556000845 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 945556000846 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 945556000847 domain interfaces; other site 945556000848 active site 945556000849 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 945556000850 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 945556000851 active site 945556000852 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 945556000853 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 945556000854 active site 945556000855 H-NS histone family; Region: Histone_HNS; pfam00816 945556000856 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 945556000857 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 945556000858 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 945556000859 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 945556000860 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 945556000861 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 945556000862 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 945556000863 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 945556000864 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 945556000865 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 945556000866 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 945556000867 phosphopeptide binding site; other site 945556000868 phosphoglycolate phosphatase; Provisional; Region: PRK13222 945556000869 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 945556000870 motif II; other site 945556000871 anthranilate synthase component I; Provisional; Region: PRK13565 945556000872 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 945556000873 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 945556000874 elongation factor Tu; Reviewed; Region: PRK00049 945556000875 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 945556000876 G1 box; other site 945556000877 GEF interaction site [polypeptide binding]; other site 945556000878 GTP/Mg2+ binding site [chemical binding]; other site 945556000879 Switch I region; other site 945556000880 G2 box; other site 945556000881 G3 box; other site 945556000882 Switch II region; other site 945556000883 G4 box; other site 945556000884 G5 box; other site 945556000885 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 945556000886 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 945556000887 Antibiotic Binding Site [chemical binding]; other site 945556000888 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 945556000889 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 945556000890 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 945556000891 putative homodimer interface [polypeptide binding]; other site 945556000892 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 945556000893 heterodimer interface [polypeptide binding]; other site 945556000894 homodimer interface [polypeptide binding]; other site 945556000895 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 945556000896 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 945556000897 23S rRNA interface [nucleotide binding]; other site 945556000898 L7/L12 interface [polypeptide binding]; other site 945556000899 putative thiostrepton binding site; other site 945556000900 L25 interface [polypeptide binding]; other site 945556000901 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 945556000902 mRNA/rRNA interface [nucleotide binding]; other site 945556000903 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 945556000904 23S rRNA interface [nucleotide binding]; other site 945556000905 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 945556000906 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 945556000907 core dimer interface [polypeptide binding]; other site 945556000908 peripheral dimer interface [polypeptide binding]; other site 945556000909 L10 interface [polypeptide binding]; other site 945556000910 L11 interface [polypeptide binding]; other site 945556000911 putative EF-Tu interaction site [polypeptide binding]; other site 945556000912 putative EF-G interaction site [polypeptide binding]; other site 945556000913 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 945556000914 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 945556000915 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 945556000916 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 945556000917 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 945556000918 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 945556000919 RPB1 interaction site [polypeptide binding]; other site 945556000920 RPB11 interaction site [polypeptide binding]; other site 945556000921 RPB10 interaction site [polypeptide binding]; other site 945556000922 RPB3 interaction site [polypeptide binding]; other site 945556000923 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 945556000924 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 945556000925 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 945556000926 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 945556000927 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 945556000928 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 945556000929 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 945556000930 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 945556000931 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 945556000932 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 945556000933 DNA binding site [nucleotide binding] 945556000934 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 945556000935 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 945556000936 active site 2 [active] 945556000937 active site 1 [active] 945556000938 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 945556000939 Predicted permease [General function prediction only]; Region: COG2056 945556000940 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 945556000941 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 945556000942 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 945556000943 heat shock protein 90; Provisional; Region: PRK05218 945556000944 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 945556000945 ATP binding site [chemical binding]; other site 945556000946 Mg2+ binding site [ion binding]; other site 945556000947 G-X-G motif; other site 945556000948 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 945556000949 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 945556000950 catalytic residues [active] 945556000951 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 945556000952 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 945556000953 DNA binding residues [nucleotide binding] 945556000954 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 945556000955 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 945556000956 hypothetical protein; Provisional; Region: PRK10215 945556000957 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 945556000958 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 945556000959 dimer interface [polypeptide binding]; other site 945556000960 active site 945556000961 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 945556000962 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 945556000963 substrate binding site [chemical binding]; other site 945556000964 oxyanion hole (OAH) forming residues; other site 945556000965 trimer interface [polypeptide binding]; other site 945556000966 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 945556000967 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 945556000968 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 945556000969 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 945556000970 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 945556000971 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 945556000972 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 945556000973 active site 945556000974 catalytic site [active] 945556000975 putative DNA binding site [nucleotide binding]; other site 945556000976 GIY-YIG motif/motif A; other site 945556000977 metal binding site [ion binding]; metal-binding site 945556000978 UvrB/uvrC motif; Region: UVR; pfam02151 945556000979 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 945556000980 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 945556000981 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 945556000982 active site 945556000983 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II; cd00556 945556000984 active site 945556000985 dimer interface [polypeptide binding]; other site 945556000986 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 945556000987 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556000988 Helix-turn-helix domain; Region: HTH_18; pfam12833 945556000989 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 945556000990 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 945556000991 DNA binding site [nucleotide binding] 945556000992 active site 945556000993 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 945556000994 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 945556000995 Transcriptional regulator [Transcription]; Region: IclR; COG1414 945556000996 Bacterial transcriptional regulator; Region: IclR; pfam01614 945556000997 Fusaric acid resistance protein family; Region: FUSC; pfam04632 945556000998 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 945556000999 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 945556001000 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 945556001001 HlyD family secretion protein; Region: HlyD_3; pfam13437 945556001002 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 945556001003 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 945556001004 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 945556001005 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 945556001006 Walker A/P-loop; other site 945556001007 ATP binding site [chemical binding]; other site 945556001008 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 945556001009 ABC transporter signature motif; other site 945556001010 Walker B; other site 945556001011 D-loop; other site 945556001012 H-loop/switch region; other site 945556001013 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 945556001014 binding surface 945556001015 Tetratricopeptide repeat; Region: TPR_16; pfam13432 945556001016 TPR motif; other site 945556001017 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 945556001018 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 945556001019 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 945556001020 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 945556001021 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 945556001022 EamA-like transporter family; Region: EamA; pfam00892 945556001023 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 945556001024 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 945556001025 CoA-binding site [chemical binding]; other site 945556001026 ATP-binding [chemical binding]; other site 945556001027 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 945556001028 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 945556001029 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 945556001030 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 945556001031 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 945556001032 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 945556001033 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 945556001034 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 945556001035 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 945556001036 Walker A motif; other site 945556001037 ATP binding site [chemical binding]; other site 945556001038 Walker B motif; other site 945556001039 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 945556001040 triosephosphate isomerase; Provisional; Region: PRK14567 945556001041 substrate binding site [chemical binding]; other site 945556001042 dimer interface [polypeptide binding]; other site 945556001043 catalytic triad [active] 945556001044 Preprotein translocase SecG subunit; Region: SecG; pfam03840 945556001045 Sm and related proteins; Region: Sm_like; cl00259 945556001046 ribosome maturation protein RimP; Reviewed; Region: PRK00092 945556001047 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 945556001048 putative oligomer interface [polypeptide binding]; other site 945556001049 putative RNA binding site [nucleotide binding]; other site 945556001050 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 945556001051 NusA N-terminal domain; Region: NusA_N; pfam08529 945556001052 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 945556001053 RNA binding site [nucleotide binding]; other site 945556001054 homodimer interface [polypeptide binding]; other site 945556001055 NusA-like KH domain; Region: KH_5; pfam13184 945556001056 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 945556001057 G-X-X-G motif; other site 945556001058 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 945556001059 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 945556001060 translation initiation factor IF-2; Region: IF-2; TIGR00487 945556001061 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 945556001062 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 945556001063 G1 box; other site 945556001064 putative GEF interaction site [polypeptide binding]; other site 945556001065 GTP/Mg2+ binding site [chemical binding]; other site 945556001066 Switch I region; other site 945556001067 G2 box; other site 945556001068 G3 box; other site 945556001069 Switch II region; other site 945556001070 G4 box; other site 945556001071 G5 box; other site 945556001072 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 945556001073 Translation-initiation factor 2; Region: IF-2; pfam11987 945556001074 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 945556001075 ribosome-binding factor A; Provisional; Region: PRK13816 945556001076 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 945556001077 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 945556001078 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 945556001079 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 945556001080 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 945556001081 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 945556001082 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 945556001083 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 945556001084 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 945556001085 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 945556001086 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 945556001087 AAA domain; Region: AAA_23; pfam13476 945556001088 Family description; Region: UvrD_C_2; pfam13538 945556001089 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 945556001090 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 945556001091 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 945556001092 metal binding site [ion binding]; metal-binding site 945556001093 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 945556001094 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 945556001095 ABC1 family; Region: ABC1; cl17513 945556001096 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 945556001097 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 945556001098 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 945556001099 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 945556001100 S-adenosylmethionine binding site [chemical binding]; other site 945556001101 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 945556001102 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 945556001103 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 945556001104 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 945556001105 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 945556001106 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 945556001107 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 945556001108 Part of AAA domain; Region: AAA_19; pfam13245 945556001109 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 945556001110 Family description; Region: UvrD_C_2; pfam13538 945556001111 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 945556001112 AAA domain; Region: AAA_30; pfam13604 945556001113 AAA domain; Region: AAA_22; pfam13401 945556001114 Family description; Region: UvrD_C_2; pfam13538 945556001115 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 945556001116 Beta-lactamase; Region: Beta-lactamase; pfam00144 945556001117 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 945556001118 16S/18S rRNA binding site [nucleotide binding]; other site 945556001119 S13e-L30e interaction site [polypeptide binding]; other site 945556001120 25S rRNA binding site [nucleotide binding]; other site 945556001121 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 945556001122 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 945556001123 RNase E interface [polypeptide binding]; other site 945556001124 trimer interface [polypeptide binding]; other site 945556001125 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 945556001126 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 945556001127 RNase E interface [polypeptide binding]; other site 945556001128 trimer interface [polypeptide binding]; other site 945556001129 active site 945556001130 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 945556001131 putative nucleic acid binding region [nucleotide binding]; other site 945556001132 G-X-X-G motif; other site 945556001133 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 945556001134 RNA binding site [nucleotide binding]; other site 945556001135 domain interface; other site 945556001136 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 945556001137 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 945556001138 oligomer interface [polypeptide binding]; other site 945556001139 metal binding site [ion binding]; metal-binding site 945556001140 metal binding site [ion binding]; metal-binding site 945556001141 putative Cl binding site [ion binding]; other site 945556001142 aspartate ring; other site 945556001143 basic sphincter; other site 945556001144 hydrophobic gate; other site 945556001145 periplasmic entrance; other site 945556001146 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 945556001147 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 945556001148 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 945556001149 HSP70 interaction site [polypeptide binding]; other site 945556001150 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 945556001151 substrate binding site [polypeptide binding]; other site 945556001152 dimer interface [polypeptide binding]; other site 945556001153 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 945556001154 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 945556001155 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 945556001156 dimerization interface [polypeptide binding]; other site 945556001157 domain crossover interface; other site 945556001158 redox-dependent activation switch; other site 945556001159 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 945556001160 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 945556001161 TrkA-N domain; Region: TrkA_N; pfam02254 945556001162 primosome assembly protein PriA; Validated; Region: PRK05580 945556001163 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 945556001164 ATP binding site [chemical binding]; other site 945556001165 putative Mg++ binding site [ion binding]; other site 945556001166 helicase superfamily c-terminal domain; Region: HELICc; smart00490 945556001167 ATP-binding site [chemical binding]; other site 945556001168 type II secretion system protein F; Region: GspF; TIGR02120 945556001169 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 945556001170 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 945556001171 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 945556001172 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 945556001173 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 945556001174 dimer interface [polypeptide binding]; other site 945556001175 putative tRNA-binding site [nucleotide binding]; other site 945556001176 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 945556001177 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 945556001178 putative active site [active] 945556001179 catalytic triad [active] 945556001180 putative dimer interface [polypeptide binding]; other site 945556001181 FOG: CBS domain [General function prediction only]; Region: COG0517 945556001182 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 945556001183 Transporter associated domain; Region: CorC_HlyC; smart01091 945556001184 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 945556001185 CPxP motif; other site 945556001186 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 945556001187 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 945556001188 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 945556001189 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 945556001190 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 945556001191 glutamate racemase; Provisional; Region: PRK00865 945556001192 aspartate racemase; Region: asp_race; TIGR00035 945556001193 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 945556001194 ferrochelatase; Reviewed; Region: hemH; PRK00035 945556001195 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 945556001196 C-terminal domain interface [polypeptide binding]; other site 945556001197 active site 945556001198 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 945556001199 active site 945556001200 N-terminal domain interface [polypeptide binding]; other site 945556001201 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 945556001202 Domain of unknown function (DUF329); Region: DUF329; pfam03884 945556001203 Putative methyltransferase; Region: Methyltransf_4; cl17290 945556001204 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 945556001205 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 945556001206 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 945556001207 chromosome condensation membrane protein; Provisional; Region: PRK14196 945556001208 HopJ type III effector protein; Region: HopJ; pfam08888 945556001209 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 945556001210 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 945556001211 ABC1 family; Region: ABC1; pfam03109 945556001212 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 945556001213 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 945556001214 Flavin binding site [chemical binding]; other site 945556001215 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 945556001216 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 945556001217 Flavin binding site [chemical binding]; other site 945556001218 multidrug efflux protein; Reviewed; Region: PRK01766 945556001219 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 945556001220 cation binding site [ion binding]; other site 945556001221 Protein of unknown function, DUF606; Region: DUF606; pfam04657 945556001222 HemN family oxidoreductase; Provisional; Region: PRK05660 945556001223 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 945556001224 FeS/SAM binding site; other site 945556001225 HemN C-terminal domain; Region: HemN_C; pfam06969 945556001226 short chain dehydrogenase; Provisional; Region: PRK12744 945556001227 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 945556001228 NADP binding site [chemical binding]; other site 945556001229 homodimer interface [polypeptide binding]; other site 945556001230 active site 945556001231 substrate binding site [chemical binding]; other site 945556001232 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556001233 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556001234 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 945556001235 putative effector binding pocket; other site 945556001236 putative dimerization interface [polypeptide binding]; other site 945556001237 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 945556001238 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 945556001239 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 945556001240 acyl-activating enzyme (AAE) consensus motif; other site 945556001241 putative AMP binding site [chemical binding]; other site 945556001242 putative active site [active] 945556001243 putative CoA binding site [chemical binding]; other site 945556001244 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 945556001245 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 945556001246 homodimer interface [polypeptide binding]; other site 945556001247 oligonucleotide binding site [chemical binding]; other site 945556001248 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 945556001249 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 945556001250 RNA binding surface [nucleotide binding]; other site 945556001251 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 945556001252 active site 945556001253 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 945556001254 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 945556001255 motif II; other site 945556001256 HTH domain; Region: HTH_11; pfam08279 945556001257 WYL domain; Region: WYL; pfam13280 945556001258 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 945556001259 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 945556001260 putative C-terminal domain interface [polypeptide binding]; other site 945556001261 putative GSH binding site (G-site) [chemical binding]; other site 945556001262 putative dimer interface [polypeptide binding]; other site 945556001263 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 945556001264 dimer interface [polypeptide binding]; other site 945556001265 N-terminal domain interface [polypeptide binding]; other site 945556001266 putative substrate binding pocket (H-site) [chemical binding]; other site 945556001267 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 945556001268 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 945556001269 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556001270 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 945556001271 dimerization interface [polypeptide binding]; other site 945556001272 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 945556001273 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 945556001274 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 945556001275 heme binding site [chemical binding]; other site 945556001276 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 945556001277 heme binding site [chemical binding]; other site 945556001278 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 945556001279 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 945556001280 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 945556001281 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 945556001282 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 945556001283 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 945556001284 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 945556001285 putative active site [active] 945556001286 Ap4A binding site [chemical binding]; other site 945556001287 nudix motif; other site 945556001288 putative metal binding site [ion binding]; other site 945556001289 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 945556001290 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 945556001291 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556001292 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556001293 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 945556001294 dimerization interface [polypeptide binding]; other site 945556001295 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 945556001296 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 945556001297 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 945556001298 substrate binding site [chemical binding]; other site 945556001299 ligand binding site [chemical binding]; other site 945556001300 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 945556001301 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 945556001302 substrate binding site [chemical binding]; other site 945556001303 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 945556001304 tartrate dehydrogenase; Region: TTC; TIGR02089 945556001305 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 945556001306 rRNA binding site [nucleotide binding]; other site 945556001307 predicted 30S ribosome binding site; other site 945556001308 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 945556001309 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 945556001310 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556001311 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 945556001312 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 945556001313 dimerization interface 3.5A [polypeptide binding]; other site 945556001314 active site 945556001315 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 945556001316 active site 945556001317 homodimer interface [polypeptide binding]; other site 945556001318 FimV N-terminal domain; Region: FimV_core; TIGR03505 945556001319 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 945556001320 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 945556001321 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 945556001322 putative catalytic site [active] 945556001323 putative metal binding site [ion binding]; other site 945556001324 putative phosphate binding site [ion binding]; other site 945556001325 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 945556001326 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 945556001327 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 945556001328 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 945556001329 putative ADP-binding pocket [chemical binding]; other site 945556001330 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 945556001331 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 945556001332 putative acyl-acceptor binding pocket; other site 945556001333 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 945556001334 ABC transporter ATPase component; Reviewed; Region: PRK11147 945556001335 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 945556001336 Walker A/P-loop; other site 945556001337 ATP binding site [chemical binding]; other site 945556001338 Q-loop/lid; other site 945556001339 ABC transporter signature motif; other site 945556001340 Walker B; other site 945556001341 D-loop; other site 945556001342 H-loop/switch region; other site 945556001343 ABC transporter; Region: ABC_tran_2; pfam12848 945556001344 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 945556001345 SlyX; Region: SlyX; pfam04102 945556001346 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 945556001347 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 945556001348 putative NAD(P) binding site [chemical binding]; other site 945556001349 dimer interface [polypeptide binding]; other site 945556001350 Predicted transcriptional regulators [Transcription]; Region: COG1733 945556001351 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 945556001352 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 945556001353 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 945556001354 active site 945556001355 interdomain interaction site; other site 945556001356 putative metal-binding site [ion binding]; other site 945556001357 nucleotide binding site [chemical binding]; other site 945556001358 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 945556001359 domain I; other site 945556001360 DNA binding groove [nucleotide binding] 945556001361 phosphate binding site [ion binding]; other site 945556001362 domain II; other site 945556001363 domain III; other site 945556001364 nucleotide binding site [chemical binding]; other site 945556001365 catalytic site [active] 945556001366 domain IV; other site 945556001367 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 945556001368 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 945556001369 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 945556001370 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 945556001371 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 945556001372 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 945556001373 Part of AAA domain; Region: AAA_19; pfam13245 945556001374 Family description; Region: UvrD_C_2; pfam13538 945556001375 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 945556001376 RNA recognition motif; Region: RRM; smart00360 945556001377 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 945556001378 putative cation:proton antiport protein; Provisional; Region: PRK10669 945556001379 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 945556001380 TrkA-N domain; Region: TrkA_N; pfam02254 945556001381 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 945556001382 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 945556001383 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 945556001384 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 945556001385 NAD(P) binding site [chemical binding]; other site 945556001386 catalytic residues [active] 945556001387 Bacterial transcriptional repressor; Region: TetR; pfam13972 945556001388 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 945556001389 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 945556001390 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 945556001391 putative active site [active] 945556001392 putative substrate binding site [chemical binding]; other site 945556001393 putative cosubstrate binding site; other site 945556001394 catalytic site [active] 945556001395 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 945556001396 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 945556001397 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 945556001398 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 945556001399 methionine sulfoxide reductase A; Provisional; Region: PRK14054 945556001400 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 945556001401 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 945556001402 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 945556001403 folate binding site [chemical binding]; other site 945556001404 NADP+ binding site [chemical binding]; other site 945556001405 thymidylate synthase; Reviewed; Region: thyA; PRK01827 945556001406 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 945556001407 dimerization interface [polypeptide binding]; other site 945556001408 active site 945556001409 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 945556001410 NRDE protein; Region: NRDE; cl01315 945556001411 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 945556001412 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 945556001413 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 945556001414 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 945556001415 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 945556001416 Membrane transport protein; Region: Mem_trans; cl09117 945556001417 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 945556001418 active site 945556001419 dimerization interface [polypeptide binding]; other site 945556001420 Sel1-like repeats; Region: SEL1; smart00671 945556001421 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 945556001422 Sel1-like repeats; Region: SEL1; smart00671 945556001423 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 945556001424 S-adenosylmethionine binding site [chemical binding]; other site 945556001425 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 945556001426 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 945556001427 2-isopropylmalate synthase; Validated; Region: PRK03739 945556001428 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 945556001429 active site 945556001430 catalytic residues [active] 945556001431 metal binding site [ion binding]; metal-binding site 945556001432 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 945556001433 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 945556001434 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 945556001435 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 945556001436 N-terminal plug; other site 945556001437 ligand-binding site [chemical binding]; other site 945556001438 trigger factor; Provisional; Region: tig; PRK01490 945556001439 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 945556001440 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 945556001441 Clp protease; Region: CLP_protease; pfam00574 945556001442 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 945556001443 oligomer interface [polypeptide binding]; other site 945556001444 active site residues [active] 945556001445 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 945556001446 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 945556001447 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 945556001448 Walker A motif; other site 945556001449 ATP binding site [chemical binding]; other site 945556001450 Walker B motif; other site 945556001451 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 945556001452 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 945556001453 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 945556001454 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 945556001455 Fumarase C-terminus; Region: Fumerase_C; pfam05683 945556001456 phosphate acetyltransferase; Reviewed; Region: PRK05632 945556001457 DRTGG domain; Region: DRTGG; pfam07085 945556001458 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 945556001459 propionate/acetate kinase; Provisional; Region: PRK12379 945556001460 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 945556001461 nucleotide binding site [chemical binding]; other site 945556001462 Butyrate kinase [Energy production and conversion]; Region: COG3426 945556001463 phosphogluconate dehydratase; Validated; Region: PRK09054 945556001464 6-phosphogluconate dehydratase; Region: edd; TIGR01196 945556001465 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 945556001466 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 945556001467 active site 945556001468 intersubunit interface [polypeptide binding]; other site 945556001469 catalytic residue [active] 945556001470 GntP family permease; Region: GntP_permease; pfam02447 945556001471 fructuronate transporter; Provisional; Region: PRK10034; cl15264 945556001472 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 945556001473 ATP-binding site [chemical binding]; other site 945556001474 Gluconate-6-phosphate binding site [chemical binding]; other site 945556001475 Shikimate kinase; Region: SKI; pfam01202 945556001476 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 945556001477 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 945556001478 tetrameric interface [polypeptide binding]; other site 945556001479 activator binding site; other site 945556001480 NADP binding site [chemical binding]; other site 945556001481 substrate binding site [chemical binding]; other site 945556001482 catalytic residues [active] 945556001483 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 945556001484 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 945556001485 putative catalytic cysteine [active] 945556001486 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 945556001487 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 945556001488 beta-hexosaminidase; Provisional; Region: PRK05337 945556001489 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 945556001490 carboxy-terminal protease; Provisional; Region: PRK11186 945556001491 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 945556001492 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 945556001493 protein binding site [polypeptide binding]; other site 945556001494 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 945556001495 Catalytic dyad [active] 945556001496 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 945556001497 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 945556001498 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 945556001499 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 945556001500 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 945556001501 active site 945556001502 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 945556001503 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 945556001504 active site 945556001505 multimer interface [polypeptide binding]; other site 945556001506 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 945556001507 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 945556001508 FeS/SAM binding site; other site 945556001509 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 945556001510 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 945556001511 TPR motif; other site 945556001512 binding surface 945556001513 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 945556001514 TPR motif; other site 945556001515 binding surface 945556001516 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 945556001517 binding surface 945556001518 TPR motif; other site 945556001519 Helix-turn-helix domain; Region: HTH_25; pfam13413 945556001520 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 945556001521 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 945556001522 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 945556001523 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 945556001524 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 945556001525 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 945556001526 dimer interface [polypeptide binding]; other site 945556001527 motif 1; other site 945556001528 active site 945556001529 motif 2; other site 945556001530 motif 3; other site 945556001531 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 945556001532 anticodon binding site; other site 945556001533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 945556001534 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 945556001535 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 945556001536 TPR motif; other site 945556001537 binding surface 945556001538 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 945556001539 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 945556001540 Trp docking motif [polypeptide binding]; other site 945556001541 active site 945556001542 GTP-binding protein Der; Reviewed; Region: PRK00093 945556001543 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 945556001544 G1 box; other site 945556001545 GTP/Mg2+ binding site [chemical binding]; other site 945556001546 Switch I region; other site 945556001547 G2 box; other site 945556001548 Switch II region; other site 945556001549 G3 box; other site 945556001550 G4 box; other site 945556001551 G5 box; other site 945556001552 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 945556001553 G1 box; other site 945556001554 GTP/Mg2+ binding site [chemical binding]; other site 945556001555 Switch I region; other site 945556001556 G2 box; other site 945556001557 G3 box; other site 945556001558 Switch II region; other site 945556001559 G4 box; other site 945556001560 G5 box; other site 945556001561 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 945556001562 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 945556001563 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 945556001564 putative acyl-acceptor binding pocket; other site 945556001565 Phosphopantetheine attachment site; Region: PP-binding; cl09936 945556001566 acyl carrier protein; Provisional; Region: PRK05350 945556001567 Predicted membrane protein [Function unknown]; Region: COG4648 945556001568 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 945556001569 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 945556001570 acyl-activating enzyme (AAE) consensus motif; other site 945556001571 active site 945556001572 AMP binding site [chemical binding]; other site 945556001573 CoA binding site [chemical binding]; other site 945556001574 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 945556001575 active site 2 [active] 945556001576 active site 1 [active] 945556001577 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 945556001578 Ligand binding site; other site 945556001579 Putative Catalytic site; other site 945556001580 DXD motif; other site 945556001581 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 945556001582 putative acyl-acceptor binding pocket; other site 945556001583 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 945556001584 active sites [active] 945556001585 tetramer interface [polypeptide binding]; other site 945556001586 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 945556001587 active site 945556001588 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 945556001589 Predicted exporter [General function prediction only]; Region: COG4258 945556001590 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 945556001591 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 945556001592 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 945556001593 dimer interface [polypeptide binding]; other site 945556001594 active site 945556001595 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 945556001596 putative active site 1 [active] 945556001597 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 945556001598 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 945556001599 NAD(P) binding site [chemical binding]; other site 945556001600 homotetramer interface [polypeptide binding]; other site 945556001601 homodimer interface [polypeptide binding]; other site 945556001602 active site 945556001603 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 945556001604 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 945556001605 dimer interface [polypeptide binding]; other site 945556001606 active site 945556001607 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 945556001608 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 945556001609 preprotein translocase subunit SecB; Validated; Region: PRK05751 945556001610 SecA binding site; other site 945556001611 Preprotein binding site; other site 945556001612 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 945556001613 GSH binding site [chemical binding]; other site 945556001614 catalytic residues [active] 945556001615 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 945556001616 active site residue [active] 945556001617 GTPase RsgA; Reviewed; Region: PRK12288 945556001618 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 945556001619 RNA binding site [nucleotide binding]; other site 945556001620 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 945556001621 GTPase/Zn-binding domain interface [polypeptide binding]; other site 945556001622 GTP/Mg2+ binding site [chemical binding]; other site 945556001623 G4 box; other site 945556001624 G5 box; other site 945556001625 G1 box; other site 945556001626 Switch I region; other site 945556001627 G2 box; other site 945556001628 G3 box; other site 945556001629 Switch II region; other site 945556001630 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 945556001631 catalytic site [active] 945556001632 putative active site [active] 945556001633 putative substrate binding site [chemical binding]; other site 945556001634 dimer interface [polypeptide binding]; other site 945556001635 Bax inhibitor 1 like; Region: BaxI_1; cl17691 945556001636 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 945556001637 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 945556001638 NAD binding site [chemical binding]; other site 945556001639 homotetramer interface [polypeptide binding]; other site 945556001640 homodimer interface [polypeptide binding]; other site 945556001641 substrate binding site [chemical binding]; other site 945556001642 active site 945556001643 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 945556001644 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 945556001645 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 945556001646 Walker A/P-loop; other site 945556001647 ATP binding site [chemical binding]; other site 945556001648 Q-loop/lid; other site 945556001649 ABC transporter signature motif; other site 945556001650 Walker B; other site 945556001651 D-loop; other site 945556001652 H-loop/switch region; other site 945556001653 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 945556001654 FtsX-like permease family; Region: FtsX; pfam02687 945556001655 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 945556001656 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 945556001657 HlyD family secretion protein; Region: HlyD_3; pfam13437 945556001658 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 945556001659 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 945556001660 Lipopolysaccharide-assembly; Region: LptE; pfam04390 945556001661 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 945556001662 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 945556001663 HIGH motif; other site 945556001664 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 945556001665 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 945556001666 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 945556001667 active site 945556001668 KMSKS motif; other site 945556001669 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 945556001670 tRNA binding surface [nucleotide binding]; other site 945556001671 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 945556001672 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 945556001673 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 945556001674 PYR/PP interface [polypeptide binding]; other site 945556001675 dimer interface [polypeptide binding]; other site 945556001676 TPP binding site [chemical binding]; other site 945556001677 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 945556001678 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 945556001679 TPP-binding site [chemical binding]; other site 945556001680 dimer interface [polypeptide binding]; other site 945556001681 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 945556001682 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 945556001683 putative valine binding site [chemical binding]; other site 945556001684 dimer interface [polypeptide binding]; other site 945556001685 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 945556001686 ketol-acid reductoisomerase; Provisional; Region: PRK05479 945556001687 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 945556001688 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 945556001689 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 945556001690 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 945556001691 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 945556001692 metal binding site [ion binding]; metal-binding site 945556001693 active site 945556001694 I-site; other site 945556001695 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 945556001696 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556001697 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556001698 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 945556001699 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 945556001700 G1 box; other site 945556001701 putative GEF interaction site [polypeptide binding]; other site 945556001702 GTP/Mg2+ binding site [chemical binding]; other site 945556001703 Switch I region; other site 945556001704 G2 box; other site 945556001705 G3 box; other site 945556001706 Switch II region; other site 945556001707 G4 box; other site 945556001708 G5 box; other site 945556001709 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 945556001710 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 945556001711 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 945556001712 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 945556001713 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 945556001714 active site 945556001715 aconitate hydratase; Validated; Region: PRK09277 945556001716 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 945556001717 substrate binding site [chemical binding]; other site 945556001718 ligand binding site [chemical binding]; other site 945556001719 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 945556001720 substrate binding site [chemical binding]; other site 945556001721 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 945556001722 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 945556001723 putative ATP binding site [chemical binding]; other site 945556001724 putative substrate interface [chemical binding]; other site 945556001725 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556001726 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556001727 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 945556001728 dimerization interface [polypeptide binding]; other site 945556001729 substrate binding pocket [chemical binding]; other site 945556001730 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 945556001731 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 945556001732 FMN binding site [chemical binding]; other site 945556001733 active site 945556001734 catalytic residues [active] 945556001735 substrate binding site [chemical binding]; other site 945556001736 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 945556001737 active site 945556001738 DNA binding site [nucleotide binding] 945556001739 Int/Topo IB signature motif; other site 945556001740 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 945556001741 YfbU domain; Region: YfbU; cl01137 945556001742 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 945556001743 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 945556001744 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 945556001745 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 945556001746 putative DNA binding site [nucleotide binding]; other site 945556001747 putative Zn2+ binding site [ion binding]; other site 945556001748 AsnC family; Region: AsnC_trans_reg; pfam01037 945556001749 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 945556001750 Amidinotransferase; Region: Amidinotransf; pfam02274 945556001751 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 945556001752 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 945556001753 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 945556001754 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 945556001755 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 945556001756 NAD(P) binding site [chemical binding]; other site 945556001757 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 945556001758 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 945556001759 inhibitor-cofactor binding pocket; inhibition site 945556001760 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556001761 catalytic residue [active] 945556001762 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 945556001763 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 945556001764 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 945556001765 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 945556001766 NAD(P) binding site [chemical binding]; other site 945556001767 catalytic residues [active] 945556001768 succinylglutamate desuccinylase; Provisional; Region: PRK05324 945556001769 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 945556001770 active site 945556001771 Zn binding site [ion binding]; other site 945556001772 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 945556001773 metabolite-proton symporter; Region: 2A0106; TIGR00883 945556001774 putative substrate translocation pore; other site 945556001775 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 945556001776 intersubunit interface [polypeptide binding]; other site 945556001777 active site 945556001778 Zn2+ binding site [ion binding]; other site 945556001779 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 945556001780 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 945556001781 putative ligand binding site [chemical binding]; other site 945556001782 NAD binding site [chemical binding]; other site 945556001783 dimerization interface [polypeptide binding]; other site 945556001784 catalytic site [active] 945556001785 allantoate amidohydrolase; Reviewed; Region: PRK09290 945556001786 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 945556001787 active site 945556001788 metal binding site [ion binding]; metal-binding site 945556001789 dimer interface [polypeptide binding]; other site 945556001790 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 945556001791 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 945556001792 active site 945556001793 Zn binding site [ion binding]; other site 945556001794 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556001795 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556001796 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 945556001797 dimerization interface [polypeptide binding]; other site 945556001798 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 945556001799 HSP70 interaction site [polypeptide binding]; other site 945556001800 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 945556001801 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 945556001802 HsdM N-terminal domain; Region: HsdM_N; pfam12161 945556001803 HsdM N-terminal domain; Region: HsdM_N; pfam12161 945556001804 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 945556001805 Methyltransferase domain; Region: Methyltransf_26; pfam13659 945556001806 Divergent AAA domain; Region: AAA_4; pfam04326 945556001807 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 945556001808 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 945556001809 putative DNA binding site [nucleotide binding]; other site 945556001810 putative Zn2+ binding site [ion binding]; other site 945556001811 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 945556001812 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 945556001813 Predicted ATPase [General function prediction only]; Region: COG4637 945556001814 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 945556001815 Walker A/P-loop; other site 945556001816 ATP binding site [chemical binding]; other site 945556001817 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 945556001818 Walker B; other site 945556001819 D-loop; other site 945556001820 H-loop/switch region; other site 945556001821 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 945556001822 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 945556001823 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 945556001824 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 945556001825 ATP binding site [chemical binding]; other site 945556001826 putative Mg++ binding site [ion binding]; other site 945556001827 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 945556001828 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 945556001829 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 945556001830 putative substrate translocation pore; other site 945556001831 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 945556001832 homotrimer interaction site [polypeptide binding]; other site 945556001833 putative active site [active] 945556001834 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 945556001835 EamA-like transporter family; Region: EamA; pfam00892 945556001836 EamA-like transporter family; Region: EamA; pfam00892 945556001837 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 945556001838 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 945556001839 ligand binding site [chemical binding]; other site 945556001840 homodimer interface [polypeptide binding]; other site 945556001841 NAD(P) binding site [chemical binding]; other site 945556001842 trimer interface B [polypeptide binding]; other site 945556001843 trimer interface A [polypeptide binding]; other site 945556001844 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 945556001845 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 945556001846 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 945556001847 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 945556001848 acetoacetyl-CoA reductase; Provisional; Region: PRK12935 945556001849 putative NAD(P) binding site [chemical binding]; other site 945556001850 active site 945556001851 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 945556001852 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 945556001853 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 945556001854 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 945556001855 enoyl-CoA hydratase; Provisional; Region: PRK07509 945556001856 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 945556001857 substrate binding site [chemical binding]; other site 945556001858 oxyanion hole (OAH) forming residues; other site 945556001859 trimer interface [polypeptide binding]; other site 945556001860 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 945556001861 dimer interface [polypeptide binding]; other site 945556001862 phosphorylation site [posttranslational modification] 945556001863 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 945556001864 ATP binding site [chemical binding]; other site 945556001865 Mg2+ binding site [ion binding]; other site 945556001866 G-X-G motif; other site 945556001867 Response regulator receiver domain; Region: Response_reg; pfam00072 945556001868 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 945556001869 active site 945556001870 phosphorylation site [posttranslational modification] 945556001871 intermolecular recognition site; other site 945556001872 dimerization interface [polypeptide binding]; other site 945556001873 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 945556001874 cysteine synthase B; Region: cysM; TIGR01138 945556001875 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 945556001876 dimer interface [polypeptide binding]; other site 945556001877 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556001878 catalytic residue [active] 945556001879 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 945556001880 active site 945556001881 catalytic site [active] 945556001882 substrate binding site [chemical binding]; other site 945556001883 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 945556001884 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 945556001885 TRAM domain; Region: TRAM; pfam01938 945556001886 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 945556001887 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 945556001888 S-adenosylmethionine binding site [chemical binding]; other site 945556001889 HD domain; Region: HD_4; pfam13328 945556001890 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 945556001891 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 945556001892 synthetase active site [active] 945556001893 NTP binding site [chemical binding]; other site 945556001894 metal binding site [ion binding]; metal-binding site 945556001895 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 945556001896 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 945556001897 short chain dehydrogenase; Provisional; Region: PRK08267 945556001898 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556001899 NAD(P) binding site [chemical binding]; other site 945556001900 active site 945556001901 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 945556001902 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 945556001903 homodimer interface [polypeptide binding]; other site 945556001904 metal binding site [ion binding]; metal-binding site 945556001905 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 945556001906 homodimer interface [polypeptide binding]; other site 945556001907 active site 945556001908 putative chemical substrate binding site [chemical binding]; other site 945556001909 metal binding site [ion binding]; metal-binding site 945556001910 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 945556001911 Helix-hairpin-helix motif; Region: HHH; pfam00633 945556001912 poly(A) polymerase; Region: pcnB; TIGR01942 945556001913 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 945556001914 active site 945556001915 NTP binding site [chemical binding]; other site 945556001916 metal binding triad [ion binding]; metal-binding site 945556001917 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 945556001918 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 945556001919 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 945556001920 catalytic center binding site [active] 945556001921 ATP binding site [chemical binding]; other site 945556001922 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 945556001923 oligomerization interface [polypeptide binding]; other site 945556001924 active site 945556001925 metal binding site [ion binding]; metal-binding site 945556001926 pantoate--beta-alanine ligase; Region: panC; TIGR00018 945556001927 Pantoate-beta-alanine ligase; Region: PanC; cd00560 945556001928 active site 945556001929 ATP-binding site [chemical binding]; other site 945556001930 pantoate-binding site; other site 945556001931 HXXH motif; other site 945556001932 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 945556001933 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 945556001934 dimerization domain swap beta strand [polypeptide binding]; other site 945556001935 regulatory protein interface [polypeptide binding]; other site 945556001936 active site 945556001937 regulatory phosphorylation site [posttranslational modification]; other site 945556001938 hypothetical protein; Provisional; Region: PRK05255 945556001939 acyl-CoA synthetase; Validated; Region: PRK08162 945556001940 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 945556001941 acyl-activating enzyme (AAE) consensus motif; other site 945556001942 putative active site [active] 945556001943 AMP binding site [chemical binding]; other site 945556001944 putative CoA binding site [chemical binding]; other site 945556001945 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 945556001946 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 945556001947 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 945556001948 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 945556001949 active site 945556001950 dimer interface [polypeptide binding]; other site 945556001951 motif 1; other site 945556001952 motif 2; other site 945556001953 motif 3; other site 945556001954 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 945556001955 anticodon binding site; other site 945556001956 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 945556001957 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 945556001958 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 945556001959 C-terminal domain interface [polypeptide binding]; other site 945556001960 GSH binding site (G-site) [chemical binding]; other site 945556001961 dimer interface [polypeptide binding]; other site 945556001962 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 945556001963 N-terminal domain interface [polypeptide binding]; other site 945556001964 putative dimer interface [polypeptide binding]; other site 945556001965 active site 945556001966 Predicted membrane protein [Function unknown]; Region: COG1238 945556001967 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 945556001968 putative substrate translocation pore; other site 945556001969 H+ Antiporter protein; Region: 2A0121; TIGR00900 945556001970 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 945556001971 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 945556001972 23S rRNA binding site [nucleotide binding]; other site 945556001973 L21 binding site [polypeptide binding]; other site 945556001974 L13 binding site [polypeptide binding]; other site 945556001975 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 945556001976 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 945556001977 Coenzyme A binding pocket [chemical binding]; other site 945556001978 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 945556001979 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 945556001980 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 945556001981 dimer interface [polypeptide binding]; other site 945556001982 motif 1; other site 945556001983 active site 945556001984 motif 2; other site 945556001985 motif 3; other site 945556001986 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 945556001987 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 945556001988 putative tRNA-binding site [nucleotide binding]; other site 945556001989 B3/4 domain; Region: B3_4; pfam03483 945556001990 tRNA synthetase B5 domain; Region: B5; smart00874 945556001991 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 945556001992 dimer interface [polypeptide binding]; other site 945556001993 motif 1; other site 945556001994 motif 3; other site 945556001995 motif 2; other site 945556001996 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 945556001997 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 945556001998 IHF dimer interface [polypeptide binding]; other site 945556001999 IHF - DNA interface [nucleotide binding]; other site 945556002000 transcription termination factor Rho; Provisional; Region: rho; PRK09376 945556002001 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 945556002002 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 945556002003 RNA binding site [nucleotide binding]; other site 945556002004 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 945556002005 multimer interface [polypeptide binding]; other site 945556002006 Walker A motif; other site 945556002007 ATP binding site [chemical binding]; other site 945556002008 Walker B motif; other site 945556002009 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 945556002010 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 945556002011 catalytic residues [active] 945556002012 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 945556002013 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 945556002014 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 945556002015 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 945556002016 TilS substrate binding domain; Region: TilS; pfam09179 945556002017 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 945556002018 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 945556002019 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 945556002020 YGGT family; Region: YGGT; pfam02325 945556002021 DNA polymerase I; Provisional; Region: PRK05755 945556002022 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 945556002023 active site 945556002024 metal binding site 1 [ion binding]; metal-binding site 945556002025 putative 5' ssDNA interaction site; other site 945556002026 metal binding site 3; metal-binding site 945556002027 metal binding site 2 [ion binding]; metal-binding site 945556002028 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 945556002029 putative DNA binding site [nucleotide binding]; other site 945556002030 putative metal binding site [ion binding]; other site 945556002031 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 945556002032 active site 945556002033 catalytic site [active] 945556002034 substrate binding site [chemical binding]; other site 945556002035 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 945556002036 active site 945556002037 DNA binding site [nucleotide binding] 945556002038 catalytic site [active] 945556002039 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 945556002040 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 945556002041 Mechanosensitive ion channel; Region: MS_channel; pfam00924 945556002042 type II secretion system protein E; Region: type_II_gspE; TIGR02533 945556002043 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 945556002044 Walker A motif; other site 945556002045 ATP binding site [chemical binding]; other site 945556002046 Walker B motif; other site 945556002047 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 945556002048 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 945556002049 MarR family; Region: MarR; pfam01047 945556002050 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 945556002051 nitrilase; Region: PLN02798 945556002052 putative active site [active] 945556002053 catalytic triad [active] 945556002054 dimer interface [polypeptide binding]; other site 945556002055 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 945556002056 anti sigma factor interaction site; other site 945556002057 regulatory phosphorylation site [posttranslational modification]; other site 945556002058 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 945556002059 VacJ like lipoprotein; Region: VacJ; cl01073 945556002060 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 945556002061 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 945556002062 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 945556002063 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 945556002064 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 945556002065 30S subunit binding site; other site 945556002066 BolA-like protein; Region: BolA; cl00386 945556002067 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 945556002068 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 945556002069 hinge; other site 945556002070 active site 945556002071 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 945556002072 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 945556002073 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 945556002074 histidinol dehydrogenase; Region: hisD; TIGR00069 945556002075 NAD binding site [chemical binding]; other site 945556002076 dimerization interface [polypeptide binding]; other site 945556002077 product binding site; other site 945556002078 substrate binding site [chemical binding]; other site 945556002079 zinc binding site [ion binding]; other site 945556002080 catalytic residues [active] 945556002081 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 945556002082 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 945556002083 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556002084 homodimer interface [polypeptide binding]; other site 945556002085 catalytic residue [active] 945556002086 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 945556002087 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 945556002088 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 945556002089 putative active site [active] 945556002090 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 945556002091 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 945556002092 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 945556002093 nudix motif; other site 945556002094 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 945556002095 putative active site [active] 945556002096 putative CoA binding site [chemical binding]; other site 945556002097 nudix motif; other site 945556002098 metal binding site [ion binding]; metal-binding site 945556002099 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 945556002100 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 945556002101 trimer interface [polypeptide binding]; other site 945556002102 putative metal binding site [ion binding]; other site 945556002103 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 945556002104 Glycoprotease family; Region: Peptidase_M22; pfam00814 945556002105 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 945556002106 Peptidase C13 family; Region: Peptidase_C13; pfam01650 945556002107 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 945556002108 S-formylglutathione hydrolase; Region: PLN02442 945556002109 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 945556002110 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 945556002111 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 945556002112 substrate binding site [chemical binding]; other site 945556002113 hexamer interface [polypeptide binding]; other site 945556002114 metal binding site [ion binding]; metal-binding site 945556002115 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 945556002116 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 945556002117 active site 945556002118 motif I; other site 945556002119 motif II; other site 945556002120 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 945556002121 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 945556002122 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 945556002123 Multicopper oxidase; Region: Cu-oxidase; pfam00394 945556002124 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 945556002125 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 945556002126 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 945556002127 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 945556002128 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 945556002129 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 945556002130 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 945556002131 DNA binding site [nucleotide binding] 945556002132 active site 945556002133 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 945556002134 heterotetramer interface [polypeptide binding]; other site 945556002135 active site pocket [active] 945556002136 cleavage site 945556002137 quinolinate synthetase; Provisional; Region: PRK09375 945556002138 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 945556002139 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 945556002140 active site 945556002141 purine riboside binding site [chemical binding]; other site 945556002142 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 945556002143 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH8; cd08262 945556002144 putative NAD(P) binding site [chemical binding]; other site 945556002145 catalytic Zn binding site [ion binding]; other site 945556002146 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 945556002147 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556002148 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 945556002149 dimerization interface [polypeptide binding]; other site 945556002150 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 945556002151 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 945556002152 FAD binding site [chemical binding]; other site 945556002153 substrate binding pocket [chemical binding]; other site 945556002154 catalytic base [active] 945556002155 benzoate transport; Region: 2A0115; TIGR00895 945556002156 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 945556002157 putative substrate translocation pore; other site 945556002158 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 945556002159 nitrobindin heme-binding domain; Region: nitrobindin; cl10502 945556002160 CoA-transferase family III; Region: CoA_transf_3; pfam02515 945556002161 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556002162 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556002163 HPP family; Region: HPP; pfam04982 945556002164 tricarballylate utilization protein B; Provisional; Region: PRK15033 945556002165 tricarballylate dehydrogenase; Validated; Region: PRK08274 945556002166 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 945556002167 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 945556002168 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556002169 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 945556002170 putative dimerization interface [polypeptide binding]; other site 945556002171 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 945556002172 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 945556002173 citrate-proton symporter; Provisional; Region: PRK15075 945556002174 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 945556002175 putative substrate translocation pore; other site 945556002176 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556002177 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556002178 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 945556002179 putative dimerization interface [polypeptide binding]; other site 945556002180 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 945556002181 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 945556002182 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 945556002183 metal binding site [ion binding]; metal-binding site 945556002184 putative dimer interface [polypeptide binding]; other site 945556002185 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 945556002186 SurA N-terminal domain; Region: SurA_N; pfam09312 945556002187 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 945556002188 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556002189 Fatty acid desaturase; Region: FA_desaturase; pfam00487 945556002190 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 945556002191 methionine synthase; Provisional; Region: PRK01207 945556002192 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 945556002193 substrate binding site [chemical binding]; other site 945556002194 THF binding site; other site 945556002195 zinc-binding site [ion binding]; other site 945556002196 Flavin Reductases; Region: FlaRed; cl00801 945556002197 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556002198 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556002199 His-Xaa-Ser system radical SAM maturase HxsB; Region: rSAM_paired_1; TIGR03978 945556002200 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 945556002201 FeS/SAM binding site; other site 945556002202 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 945556002203 His-Xaa-Ser system radical SAM maturase HxsC; Region: rSAM_pair_HxsC; TIGR03977 945556002204 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 945556002205 FeS/SAM binding site; other site 945556002206 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 945556002207 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556002208 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556002209 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 945556002210 dimerization interface [polypeptide binding]; other site 945556002211 hypothetical protein; Provisional; Region: PRK10281 945556002212 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 945556002213 dimer interface [polypeptide binding]; other site 945556002214 putative radical transfer pathway; other site 945556002215 diiron center [ion binding]; other site 945556002216 tyrosyl radical; other site 945556002217 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 945556002218 ATP cone domain; Region: ATP-cone; pfam03477 945556002219 Class I ribonucleotide reductase; Region: RNR_I; cd01679 945556002220 active site 945556002221 dimer interface [polypeptide binding]; other site 945556002222 catalytic residues [active] 945556002223 effector binding site; other site 945556002224 R2 peptide binding site; other site 945556002225 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 945556002226 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 945556002227 active site 945556002228 phosphorylation site [posttranslational modification] 945556002229 intermolecular recognition site; other site 945556002230 dimerization interface [polypeptide binding]; other site 945556002231 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 945556002232 DNA binding site [nucleotide binding] 945556002233 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 945556002234 dimerization interface [polypeptide binding]; other site 945556002235 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 945556002236 dimer interface [polypeptide binding]; other site 945556002237 phosphorylation site [posttranslational modification] 945556002238 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 945556002239 ATP binding site [chemical binding]; other site 945556002240 Mg2+ binding site [ion binding]; other site 945556002241 G-X-G motif; other site 945556002242 MASE1; Region: MASE1; cl17823 945556002243 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 945556002244 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 945556002245 metal binding site [ion binding]; metal-binding site 945556002246 active site 945556002247 I-site; other site 945556002248 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 945556002249 NADH dehydrogenase subunit B; Validated; Region: PRK06411 945556002250 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 945556002251 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 945556002252 NADH dehydrogenase subunit D; Validated; Region: PRK06075 945556002253 NADH dehydrogenase subunit E; Validated; Region: PRK07539 945556002254 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 945556002255 putative dimer interface [polypeptide binding]; other site 945556002256 [2Fe-2S] cluster binding site [ion binding]; other site 945556002257 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 945556002258 SLBB domain; Region: SLBB; pfam10531 945556002259 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 945556002260 NADH dehydrogenase subunit G; Validated; Region: PRK08166 945556002261 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 945556002262 catalytic loop [active] 945556002263 iron binding site [ion binding]; other site 945556002264 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 945556002265 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 945556002266 [4Fe-4S] binding site [ion binding]; other site 945556002267 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 945556002268 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 945556002269 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 945556002270 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 945556002271 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 945556002272 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 945556002273 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 945556002274 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 945556002275 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 945556002276 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 945556002277 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 945556002278 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 945556002279 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 945556002280 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 945556002281 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 945556002282 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 945556002283 active site 945556002284 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 945556002285 DNA-binding site [nucleotide binding]; DNA binding site 945556002286 RNA-binding motif; other site 945556002287 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 945556002288 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 945556002289 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556002290 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 945556002291 putative dimerization interface [polypeptide binding]; other site 945556002292 ferredoxin-NADP reductase; Provisional; Region: PRK10926 945556002293 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 945556002294 FAD binding pocket [chemical binding]; other site 945556002295 FAD binding motif [chemical binding]; other site 945556002296 phosphate binding motif [ion binding]; other site 945556002297 beta-alpha-beta structure motif; other site 945556002298 NAD binding pocket [chemical binding]; other site 945556002299 Conserved TM helix; Region: TM_helix; pfam05552 945556002300 Conserved TM helix; Region: TM_helix; pfam05552 945556002301 Conserved TM helix; Region: TM_helix; pfam05552 945556002302 Conserved TM helix; Region: TM_helix; pfam05552 945556002303 HI0933-like protein; Region: HI0933_like; pfam03486 945556002304 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 945556002305 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 945556002306 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 945556002307 catalytic residue [active] 945556002308 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 945556002309 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 945556002310 HlyD family secretion protein; Region: HlyD_3; pfam13437 945556002311 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 945556002312 Major Facilitator Superfamily; Region: MFS_1; pfam07690 945556002313 putative substrate translocation pore; other site 945556002314 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556002315 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556002316 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 945556002317 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 945556002318 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 945556002319 active site 945556002320 HIGH motif; other site 945556002321 KMSKS motif; other site 945556002322 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 945556002323 tRNA binding surface [nucleotide binding]; other site 945556002324 anticodon binding site; other site 945556002325 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 945556002326 dimer interface [polypeptide binding]; other site 945556002327 putative tRNA-binding site [nucleotide binding]; other site 945556002328 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 945556002329 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 945556002330 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 945556002331 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 945556002332 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 945556002333 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 945556002334 trimer interface [polypeptide binding]; other site 945556002335 active site 945556002336 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 945556002337 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 945556002338 FMN binding site [chemical binding]; other site 945556002339 active site 945556002340 catalytic residues [active] 945556002341 substrate binding site [chemical binding]; other site 945556002342 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 945556002343 signal recognition particle protein; Provisional; Region: PRK10867 945556002344 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 945556002345 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 945556002346 GTP binding site [chemical binding]; other site 945556002347 Signal peptide binding domain; Region: SRP_SPB; pfam02978 945556002348 pantothenate kinase; Reviewed; Region: PRK13322 945556002349 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 945556002350 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 945556002351 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 945556002352 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 945556002353 Transcriptional regulators [Transcription]; Region: GntR; COG1802 945556002354 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556002355 DNA-binding site [nucleotide binding]; DNA binding site 945556002356 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 945556002357 AAA domain; Region: AAA_23; pfam13476 945556002358 Walker A/P-loop; other site 945556002359 ATP binding site [chemical binding]; other site 945556002360 Q-loop/lid; other site 945556002361 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 945556002362 ABC transporter signature motif; other site 945556002363 Walker B; other site 945556002364 D-loop; other site 945556002365 H-loop/switch region; other site 945556002366 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 945556002367 FtsZ protein binding site [polypeptide binding]; other site 945556002368 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 945556002369 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 945556002370 nucleotide binding pocket [chemical binding]; other site 945556002371 K-X-D-G motif; other site 945556002372 catalytic site [active] 945556002373 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 945556002374 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 945556002375 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 945556002376 Dimer interface [polypeptide binding]; other site 945556002377 BRCT sequence motif; other site 945556002378 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 945556002379 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 945556002380 heme binding site [chemical binding]; other site 945556002381 ferroxidase pore; other site 945556002382 ferroxidase diiron center [ion binding]; other site 945556002383 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 945556002384 Major Facilitator Superfamily; Region: MFS_1; pfam07690 945556002385 putative substrate translocation pore; other site 945556002386 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 945556002387 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 945556002388 active site 945556002389 homotetramer interface [polypeptide binding]; other site 945556002390 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 945556002391 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 945556002392 active site 945556002393 motif I; other site 945556002394 motif II; other site 945556002395 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 945556002396 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 945556002397 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 945556002398 inhibitor-cofactor binding pocket; inhibition site 945556002399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556002400 catalytic residue [active] 945556002401 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 945556002402 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 945556002403 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 945556002404 catalytic residue [active] 945556002405 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 945556002406 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 945556002407 S-adenosylmethionine binding site [chemical binding]; other site 945556002408 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 945556002409 AAA domain; Region: AAA_26; pfam13500 945556002410 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 945556002411 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 945556002412 RNA binding surface [nucleotide binding]; other site 945556002413 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 945556002414 probable active site [active] 945556002415 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 945556002416 ScpA/B protein; Region: ScpA_ScpB; cl00598 945556002417 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 945556002418 Protein of unknown function, DUF462; Region: DUF462; pfam04315 945556002419 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 945556002420 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 945556002421 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 945556002422 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 945556002423 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 945556002424 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 945556002425 NAD(P) binding site [chemical binding]; other site 945556002426 homotetramer interface [polypeptide binding]; other site 945556002427 homodimer interface [polypeptide binding]; other site 945556002428 active site 945556002429 acyl carrier protein; Provisional; Region: acpP; PRK00982 945556002430 BON domain; Region: BON; pfam04972 945556002431 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 945556002432 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 945556002433 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 945556002434 dimer interface [polypeptide binding]; other site 945556002435 substrate binding site [chemical binding]; other site 945556002436 ATP binding site [chemical binding]; other site 945556002437 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 945556002438 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 945556002439 motif II; other site 945556002440 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 945556002441 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 945556002442 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 945556002443 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 945556002444 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 945556002445 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 945556002446 tetramerization interface [polypeptide binding]; other site 945556002447 active site 945556002448 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 945556002449 putative active site [active] 945556002450 catalytic residue [active] 945556002451 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 945556002452 5S rRNA interface [nucleotide binding]; other site 945556002453 CTC domain interface [polypeptide binding]; other site 945556002454 L16 interface [polypeptide binding]; other site 945556002455 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 945556002456 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 945556002457 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 945556002458 active site 945556002459 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 945556002460 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 945556002461 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 945556002462 binding surface 945556002463 TPR motif; other site 945556002464 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 945556002465 binding surface 945556002466 TPR motif; other site 945556002467 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 945556002468 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 945556002469 tRNA; other site 945556002470 putative tRNA binding site [nucleotide binding]; other site 945556002471 putative NADP binding site [chemical binding]; other site 945556002472 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 945556002473 DNA primase; Validated; Region: dnaG; PRK05667 945556002474 CHC2 zinc finger; Region: zf-CHC2; pfam01807 945556002475 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 945556002476 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 945556002477 active site 945556002478 metal binding site [ion binding]; metal-binding site 945556002479 interdomain interaction site; other site 945556002480 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 945556002481 Outer membrane lipoprotein; Region: YfiO; pfam13525 945556002482 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 945556002483 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 945556002484 RNA binding surface [nucleotide binding]; other site 945556002485 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 945556002486 active site 945556002487 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 945556002488 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 945556002489 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 945556002490 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 945556002491 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 945556002492 SmpB-tmRNA interface; other site 945556002493 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 945556002494 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 945556002495 active site 945556002496 transcriptional activator TtdR; Provisional; Region: PRK09801 945556002497 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556002498 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 945556002499 putative effector binding pocket; other site 945556002500 putative dimerization interface [polypeptide binding]; other site 945556002501 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 945556002502 tartrate dehydrogenase; Region: TTC; TIGR02089 945556002503 putative transporter; Provisional; Region: PRK09950 945556002504 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 945556002505 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 945556002506 substrate binding pocket [chemical binding]; other site 945556002507 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 945556002508 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 945556002509 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 945556002510 [2Fe-2S] cluster binding site [ion binding]; other site 945556002511 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_2; cd08886 945556002512 putative alpha subunit interface [polypeptide binding]; other site 945556002513 putative active site [active] 945556002514 putative substrate binding site [chemical binding]; other site 945556002515 Fe binding site [ion binding]; other site 945556002516 succinic semialdehyde dehydrogenase; Region: PLN02278 945556002517 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 945556002518 tetramerization interface [polypeptide binding]; other site 945556002519 NAD(P) binding site [chemical binding]; other site 945556002520 catalytic residues [active] 945556002521 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 945556002522 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 945556002523 FMN-binding pocket [chemical binding]; other site 945556002524 flavin binding motif; other site 945556002525 phosphate binding motif [ion binding]; other site 945556002526 beta-alpha-beta structure motif; other site 945556002527 NAD binding pocket [chemical binding]; other site 945556002528 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 945556002529 catalytic loop [active] 945556002530 iron binding site [ion binding]; other site 945556002531 NAD synthetase; Provisional; Region: PRK13981 945556002532 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 945556002533 multimer interface [polypeptide binding]; other site 945556002534 active site 945556002535 catalytic triad [active] 945556002536 protein interface 1 [polypeptide binding]; other site 945556002537 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 945556002538 homodimer interface [polypeptide binding]; other site 945556002539 NAD binding pocket [chemical binding]; other site 945556002540 ATP binding pocket [chemical binding]; other site 945556002541 Mg binding site [ion binding]; other site 945556002542 active-site loop [active] 945556002543 Pirin; Region: Pirin; pfam02678 945556002544 Pirin-related protein [General function prediction only]; Region: COG1741 945556002545 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 945556002546 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 945556002547 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 945556002548 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 945556002549 dimer interface [polypeptide binding]; other site 945556002550 active site 945556002551 EcsC protein family; Region: EcsC; pfam12787 945556002552 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 945556002553 S17 interaction site [polypeptide binding]; other site 945556002554 S8 interaction site; other site 945556002555 16S rRNA interaction site [nucleotide binding]; other site 945556002556 streptomycin interaction site [chemical binding]; other site 945556002557 23S rRNA interaction site [nucleotide binding]; other site 945556002558 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 945556002559 30S ribosomal protein S7; Validated; Region: PRK05302 945556002560 elongation factor G; Reviewed; Region: PRK00007 945556002561 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 945556002562 G1 box; other site 945556002563 putative GEF interaction site [polypeptide binding]; other site 945556002564 GTP/Mg2+ binding site [chemical binding]; other site 945556002565 Switch I region; other site 945556002566 G2 box; other site 945556002567 G3 box; other site 945556002568 Switch II region; other site 945556002569 G4 box; other site 945556002570 G5 box; other site 945556002571 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 945556002572 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 945556002573 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 945556002574 elongation factor Tu; Reviewed; Region: PRK00049 945556002575 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 945556002576 G1 box; other site 945556002577 GEF interaction site [polypeptide binding]; other site 945556002578 GTP/Mg2+ binding site [chemical binding]; other site 945556002579 Switch I region; other site 945556002580 G2 box; other site 945556002581 G3 box; other site 945556002582 Switch II region; other site 945556002583 G4 box; other site 945556002584 G5 box; other site 945556002585 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 945556002586 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 945556002587 Antibiotic Binding Site [chemical binding]; other site 945556002588 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 945556002589 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 945556002590 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 945556002591 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 945556002592 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 945556002593 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 945556002594 Coenzyme A binding pocket [chemical binding]; other site 945556002595 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 945556002596 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 945556002597 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 945556002598 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 945556002599 thioredoxin reductase; Provisional; Region: PRK10262 945556002600 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 945556002601 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 945556002602 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 945556002603 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 945556002604 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 945556002605 threonine efflux system; Provisional; Region: PRK10229 945556002606 Septum formation topological specificity factor MinE; Region: MinE; pfam03776 945556002607 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 945556002608 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 945556002609 Switch I; other site 945556002610 Switch II; other site 945556002611 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 945556002612 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 945556002613 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 945556002614 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 945556002615 putative acyl-acceptor binding pocket; other site 945556002616 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 945556002617 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 945556002618 ligand binding site [chemical binding]; other site 945556002619 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 945556002620 Part of AAA domain; Region: AAA_19; pfam13245 945556002621 Family description; Region: UvrD_C_2; pfam13538 945556002622 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 945556002623 trimer interface [polypeptide binding]; other site 945556002624 active site 945556002625 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 945556002626 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 945556002627 active site 945556002628 substrate binding site [chemical binding]; other site 945556002629 metal binding site [ion binding]; metal-binding site 945556002630 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 945556002631 feedback inhibition sensing region; other site 945556002632 homohexameric interface [polypeptide binding]; other site 945556002633 nucleotide binding site [chemical binding]; other site 945556002634 N-acetyl-L-glutamate binding site [chemical binding]; other site 945556002635 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 945556002636 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 945556002637 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 945556002638 putative active site [active] 945556002639 putative dimer interface [polypeptide binding]; other site 945556002640 Hemerythrin; Region: Hemerythrin; cd12107 945556002641 Fe binding site [ion binding]; other site 945556002642 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 945556002643 hypothetical protein; Validated; Region: PRK01777 945556002644 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 945556002645 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 945556002646 ferric uptake regulator; Provisional; Region: fur; PRK09462 945556002647 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 945556002648 metal binding site 2 [ion binding]; metal-binding site 945556002649 putative DNA binding helix; other site 945556002650 metal binding site 1 [ion binding]; metal-binding site 945556002651 dimer interface [polypeptide binding]; other site 945556002652 structural Zn2+ binding site [ion binding]; other site 945556002653 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 945556002654 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 945556002655 Walker A motif; other site 945556002656 ATP binding site [chemical binding]; other site 945556002657 Walker B motif; other site 945556002658 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 945556002659 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 945556002660 Walker A motif; other site 945556002661 ATP binding site [chemical binding]; other site 945556002662 Walker B motif; other site 945556002663 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 945556002664 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 945556002665 catalytic residue [active] 945556002666 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 945556002667 Walker A/P-loop; other site 945556002668 ATP binding site [chemical binding]; other site 945556002669 Q-loop/lid; other site 945556002670 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 945556002671 ABC transporter signature motif; other site 945556002672 Walker B; other site 945556002673 D-loop; other site 945556002674 H-loop/switch region; other site 945556002675 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 945556002676 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 945556002677 active site 945556002678 metal binding site [ion binding]; metal-binding site 945556002679 DNA binding site [nucleotide binding] 945556002680 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 945556002681 OsmC-like protein; Region: OsmC; cl00767 945556002682 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 945556002683 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 945556002684 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556002685 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 945556002686 NAD(P) binding site [chemical binding]; other site 945556002687 active site 945556002688 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 945556002689 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 945556002690 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 945556002691 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 945556002692 dimer interface [polypeptide binding]; other site 945556002693 allosteric magnesium binding site [ion binding]; other site 945556002694 active site 945556002695 aspartate-rich active site metal binding site; other site 945556002696 Schiff base residues; other site 945556002697 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 945556002698 CoenzymeA binding site [chemical binding]; other site 945556002699 subunit interaction site [polypeptide binding]; other site 945556002700 PHB binding site; other site 945556002701 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 945556002702 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 945556002703 HlyD family secretion protein; Region: HlyD_3; pfam13437 945556002704 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 945556002705 Major Facilitator Superfamily; Region: MFS_1; pfam07690 945556002706 putative substrate translocation pore; other site 945556002707 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 945556002708 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 945556002709 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 945556002710 integrase; Provisional; Region: PRK09692 945556002711 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 945556002712 active site 945556002713 Int/Topo IB signature motif; other site 945556002714 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 945556002715 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 945556002716 LIM is a small protein-protein interaction domain, containing two zinc fingers; Region: LIM; cl02475 945556002717 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 945556002718 GIY-YIG motif/motif A; other site 945556002719 putative active site [active] 945556002720 putative metal binding site [ion binding]; other site 945556002721 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 945556002722 outer membrane porin, OprD family; Region: OprD; pfam03573 945556002723 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 945556002724 benzoate transport; Region: 2A0115; TIGR00895 945556002725 putative substrate translocation pore; other site 945556002726 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 945556002727 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 945556002728 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 945556002729 inhibitor site; inhibition site 945556002730 active site 945556002731 dimer interface [polypeptide binding]; other site 945556002732 catalytic residue [active] 945556002733 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556002734 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556002735 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 945556002736 putative dimerization interface [polypeptide binding]; other site 945556002737 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 945556002738 PGAP1-like protein; Region: PGAP1; pfam07819 945556002739 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 945556002740 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 945556002741 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 945556002742 malate:quinone oxidoreductase; Validated; Region: PRK05257 945556002743 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 945556002744 choline dehydrogenase; Validated; Region: PRK02106 945556002745 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 945556002746 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 945556002747 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 945556002748 tetrameric interface [polypeptide binding]; other site 945556002749 NAD binding site [chemical binding]; other site 945556002750 catalytic residues [active] 945556002751 transcriptional regulator BetI; Validated; Region: PRK00767 945556002752 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556002753 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 945556002754 BCCT family transporter; Region: BCCT; pfam02028 945556002755 choline transport protein BetT; Provisional; Region: PRK09928 945556002756 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 945556002757 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 945556002758 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 945556002759 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 945556002760 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 945556002761 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 945556002762 YaeQ protein; Region: YaeQ; pfam07152 945556002763 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 945556002764 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 945556002765 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 945556002766 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 945556002767 putative active site [active] 945556002768 putative metal binding site [ion binding]; other site 945556002769 N-glycosyltransferase; Provisional; Region: PRK11204 945556002770 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 945556002771 DXD motif; other site 945556002772 PgaD-like protein; Region: PgaD; pfam13994 945556002773 enoyl-CoA hydratase; Provisional; Region: PRK06563 945556002774 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 945556002775 substrate binding site [chemical binding]; other site 945556002776 oxyanion hole (OAH) forming residues; other site 945556002777 trimer interface [polypeptide binding]; other site 945556002778 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 945556002779 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 945556002780 Transcriptional regulator [Transcription]; Region: IclR; COG1414 945556002781 Bacterial transcriptional regulator; Region: IclR; pfam01614 945556002782 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 945556002783 [2Fe-2S] cluster binding site [ion binding]; other site 945556002784 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 945556002785 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 945556002786 [2Fe-2S] cluster binding site [ion binding]; other site 945556002787 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 945556002788 hydrophobic ligand binding site; other site 945556002789 short chain dehydrogenase; Provisional; Region: PRK12939 945556002790 classical (c) SDRs; Region: SDR_c; cd05233 945556002791 NAD(P) binding site [chemical binding]; other site 945556002792 active site 945556002793 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 945556002794 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 945556002795 putative active site [active] 945556002796 putative metal binding site [ion binding]; other site 945556002797 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 945556002798 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 945556002799 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 945556002800 D-galactonate transporter; Region: 2A0114; TIGR00893 945556002801 putative substrate translocation pore; other site 945556002802 Cupin domain; Region: Cupin_2; pfam07883 945556002803 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 945556002804 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 945556002805 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 945556002806 short chain dehydrogenase; Provisional; Region: PRK07062 945556002807 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 945556002808 putative NAD(P) binding site [chemical binding]; other site 945556002809 putative active site [active] 945556002810 L-aspartate dehydrogenase; Provisional; Region: PRK13303 945556002811 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 945556002812 Domain of unknown function DUF108; Region: DUF108; pfam01958 945556002813 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 945556002814 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 945556002815 NAD(P) binding site [chemical binding]; other site 945556002816 catalytic residues [active] 945556002817 hypothetical protein; Provisional; Region: PRK07064 945556002818 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 945556002819 PYR/PP interface [polypeptide binding]; other site 945556002820 dimer interface [polypeptide binding]; other site 945556002821 TPP binding site [chemical binding]; other site 945556002822 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 945556002823 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 945556002824 TPP-binding site [chemical binding]; other site 945556002825 metabolite-proton symporter; Region: 2A0106; TIGR00883 945556002826 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 945556002827 putative substrate translocation pore; other site 945556002828 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 945556002829 active site 945556002830 catalytic residues [active] 945556002831 metal binding site [ion binding]; metal-binding site 945556002832 glutaminase; Provisional; Region: PRK00971 945556002833 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 945556002834 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 945556002835 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 945556002836 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556002837 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 945556002838 putative substrate translocation pore; other site 945556002839 Major Facilitator Superfamily; Region: MFS_1; pfam07690 945556002840 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 945556002841 active site 945556002842 catalytic residues [active] 945556002843 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 945556002844 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556002845 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 945556002846 dimerization interface [polypeptide binding]; other site 945556002847 substrate binding pocket [chemical binding]; other site 945556002848 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 945556002849 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556002850 NAD(P) binding site [chemical binding]; other site 945556002851 active site 945556002852 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 945556002853 D-galactonate transporter; Region: 2A0114; TIGR00893 945556002854 putative substrate translocation pore; other site 945556002855 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 945556002856 TPP-binding site [chemical binding]; other site 945556002857 dimer interface [polypeptide binding]; other site 945556002858 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 945556002859 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 945556002860 PYR/PP interface [polypeptide binding]; other site 945556002861 dimer interface [polypeptide binding]; other site 945556002862 TPP binding site [chemical binding]; other site 945556002863 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 945556002864 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 945556002865 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 945556002866 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 945556002867 substrate binding pocket [chemical binding]; other site 945556002868 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 945556002869 B12 binding site [chemical binding]; other site 945556002870 cobalt ligand [ion binding]; other site 945556002871 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 945556002872 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 945556002873 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 945556002874 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 945556002875 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 945556002876 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 945556002877 catalytic residue [active] 945556002878 Uncharacterized conserved protein [Function unknown]; Region: COG1262 945556002879 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 945556002880 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 945556002881 Sulfatase; Region: Sulfatase; pfam00884 945556002882 Rhomboid family; Region: Rhomboid; cl11446 945556002883 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 945556002884 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 945556002885 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 945556002886 outer membrane receptor FepA; Provisional; Region: PRK13524 945556002887 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 945556002888 N-terminal plug; other site 945556002889 ligand-binding site [chemical binding]; other site 945556002890 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 945556002891 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 945556002892 nucleophilic elbow; other site 945556002893 catalytic triad; other site 945556002894 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 945556002895 active site clefts [active] 945556002896 zinc binding site [ion binding]; other site 945556002897 dimer interface [polypeptide binding]; other site 945556002898 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 945556002899 active site 945556002900 catalytic triad [active] 945556002901 oxyanion hole [active] 945556002902 switch loop; other site 945556002903 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 945556002904 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 945556002905 Walker A/P-loop; other site 945556002906 ATP binding site [chemical binding]; other site 945556002907 Q-loop/lid; other site 945556002908 ABC transporter signature motif; other site 945556002909 Walker B; other site 945556002910 D-loop; other site 945556002911 H-loop/switch region; other site 945556002912 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 945556002913 FtsX-like permease family; Region: FtsX; pfam02687 945556002914 FtsX-like permease family; Region: FtsX; pfam02687 945556002915 Rhomboid family; Region: Rhomboid; pfam01694 945556002916 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 945556002917 Transglycosylase; Region: Transgly; cl17702 945556002918 polyphosphate kinase; Provisional; Region: PRK05443 945556002919 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 945556002920 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 945556002921 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 945556002922 putative active site [active] 945556002923 catalytic site [active] 945556002924 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 945556002925 putative active site [active] 945556002926 putative domain interface [polypeptide binding]; other site 945556002927 catalytic site [active] 945556002928 Sporulation related domain; Region: SPOR; cl10051 945556002929 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 945556002930 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556002931 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 945556002932 dimerization interface [polypeptide binding]; other site 945556002933 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 945556002934 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 945556002935 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 945556002936 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 945556002937 Rubredoxin [Energy production and conversion]; Region: COG1773 945556002938 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 945556002939 iron binding site [ion binding]; other site 945556002940 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 945556002941 putative hydrophobic ligand binding site [chemical binding]; other site 945556002942 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 945556002943 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 945556002944 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 945556002945 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 945556002946 dimer interface [polypeptide binding]; other site 945556002947 putative anticodon binding site; other site 945556002948 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 945556002949 motif 1; other site 945556002950 active site 945556002951 motif 2; other site 945556002952 motif 3; other site 945556002953 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 945556002954 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 945556002955 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 945556002956 Active Sites [active] 945556002957 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 945556002958 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 945556002959 CysD dimerization site [polypeptide binding]; other site 945556002960 G1 box; other site 945556002961 putative GEF interaction site [polypeptide binding]; other site 945556002962 GTP/Mg2+ binding site [chemical binding]; other site 945556002963 Switch I region; other site 945556002964 G2 box; other site 945556002965 G3 box; other site 945556002966 Switch II region; other site 945556002967 G4 box; other site 945556002968 G5 box; other site 945556002969 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 945556002970 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 945556002971 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 945556002972 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 945556002973 Citrate transporter; Region: CitMHS; pfam03600 945556002974 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 945556002975 Domain of unknown function DUF21; Region: DUF21; pfam01595 945556002976 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 945556002977 Transporter associated domain; Region: CorC_HlyC; smart01091 945556002978 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556002979 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556002980 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 945556002981 substrate binding pocket [chemical binding]; other site 945556002982 dimerization interface [polypeptide binding]; other site 945556002983 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 945556002984 tetramer interface [polypeptide binding]; other site 945556002985 active site 945556002986 Mg2+/Mn2+ binding site [ion binding]; other site 945556002987 isocitrate lyase; Region: PLN02892 945556002988 Uncharacterized lipoprotein NlpE involved in copper resistance [Cell envelope biogenesis, outer membrane / Inorganic ion transport and metabolism]; Region: CutF; COG3015 945556002989 NlpE N-terminal domain; Region: NlpE; pfam04170 945556002990 UreD urease accessory protein; Region: UreD; pfam01774 945556002991 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 945556002992 alpha-gamma subunit interface [polypeptide binding]; other site 945556002993 beta-gamma subunit interface [polypeptide binding]; other site 945556002994 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 945556002995 gamma-beta subunit interface [polypeptide binding]; other site 945556002996 alpha-beta subunit interface [polypeptide binding]; other site 945556002997 urease subunit alpha; Reviewed; Region: ureC; PRK13207 945556002998 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 945556002999 subunit interactions [polypeptide binding]; other site 945556003000 active site 945556003001 flap region; other site 945556003002 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 945556003003 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 945556003004 dimer interface [polypeptide binding]; other site 945556003005 catalytic residues [active] 945556003006 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 945556003007 UreF; Region: UreF; pfam01730 945556003008 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 945556003009 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 945556003010 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 945556003011 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 945556003012 S-adenosylmethionine binding site [chemical binding]; other site 945556003013 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 945556003014 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 945556003015 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 945556003016 adenylate kinase; Reviewed; Region: adk; PRK00279 945556003017 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 945556003018 AMP-binding site [chemical binding]; other site 945556003019 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 945556003020 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 945556003021 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 945556003022 minor groove reading motif; other site 945556003023 helix-hairpin-helix signature motif; other site 945556003024 substrate binding pocket [chemical binding]; other site 945556003025 active site 945556003026 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 945556003027 ferredoxin; Provisional; Region: PRK08764 945556003028 Putative Fe-S cluster; Region: FeS; cl17515 945556003029 4Fe-4S binding domain; Region: Fer4; pfam00037 945556003030 glutamate dehydrogenase; Provisional; Region: PRK09414 945556003031 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 945556003032 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 945556003033 NAD(P) binding site [chemical binding]; other site 945556003034 META domain; Region: META; pfam03724 945556003035 META domain; Region: META; pfam03724 945556003036 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 945556003037 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 945556003038 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 945556003039 putative active site [active] 945556003040 metal binding site [ion binding]; metal-binding site 945556003041 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 945556003042 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 945556003043 Found in ATP-dependent protease La (LON); Region: LON; smart00464 945556003044 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 945556003045 Walker A motif; other site 945556003046 ATP binding site [chemical binding]; other site 945556003047 Walker B motif; other site 945556003048 arginine finger; other site 945556003049 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 945556003050 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 945556003051 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 945556003052 trimer interface [polypeptide binding]; other site 945556003053 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 945556003054 trimer interface [polypeptide binding]; other site 945556003055 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 945556003056 trimer interface [polypeptide binding]; other site 945556003057 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 945556003058 trimer interface [polypeptide binding]; other site 945556003059 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 945556003060 trimer interface [polypeptide binding]; other site 945556003061 Haemagglutinin; Region: HIM; pfam05662 945556003062 Haemagglutinin; Region: HIM; pfam05662 945556003063 Haemagglutinin; Region: HIM; pfam05662 945556003064 YadA-like C-terminal region; Region: YadA; pfam03895 945556003065 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 945556003066 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 945556003067 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 945556003068 ligand binding site [chemical binding]; other site 945556003069 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 945556003070 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 945556003071 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 945556003072 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 945556003073 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 945556003074 non-specific DNA binding site [nucleotide binding]; other site 945556003075 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 945556003076 salt bridge; other site 945556003077 sequence-specific DNA binding site [nucleotide binding]; other site 945556003078 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 945556003079 Catalytic site [active] 945556003080 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 945556003081 non-specific DNA binding site [nucleotide binding]; other site 945556003082 salt bridge; other site 945556003083 sequence-specific DNA binding site [nucleotide binding]; other site 945556003084 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 945556003085 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 945556003086 cofactor binding site; other site 945556003087 DNA binding site [nucleotide binding] 945556003088 substrate interaction site [chemical binding]; other site 945556003089 Protein of unknown function (DUF1376); Region: DUF1376; pfam07120 945556003090 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 945556003091 putative active site [active] 945556003092 Uncharacterized conserved protein (DUF2280); Region: DUF2280; pfam10045 945556003093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 945556003094 Terminase-like family; Region: Terminase_6; pfam03237 945556003095 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 945556003096 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 945556003097 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 945556003098 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 945556003099 Phage protein (N4 Gp49/phage Sf6 gene 66) family; Region: Phage_gp49_66; pfam13876 945556003100 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 945556003101 Putative stress-responsive nuclear envelope protein; Region: Ish1; pfam10281 945556003102 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 945556003103 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 945556003104 Predicted transcriptional regulator [Transcription]; Region: COG2944 945556003105 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 945556003106 non-specific DNA binding site [nucleotide binding]; other site 945556003107 salt bridge; other site 945556003108 sequence-specific DNA binding site [nucleotide binding]; other site 945556003109 conjugal transfer protein TrbH; Provisional; Region: PRK13883 945556003110 Phage-related minor tail protein [Function unknown]; Region: COG5281 945556003111 tape measure domain; Region: tape_meas_nterm; TIGR02675 945556003112 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 945556003113 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 945556003114 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 945556003115 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 945556003116 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 945556003117 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 945556003118 putative metal dependent hydrolase; Provisional; Region: PRK11598 945556003119 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 945556003120 Sulfatase; Region: Sulfatase; pfam00884 945556003121 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 945556003122 active site 945556003123 Int/Topo IB signature motif; other site 945556003124 DNA binding site [nucleotide binding] 945556003125 Cell division protein ZapA; Region: ZapA; pfam05164 945556003126 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 945556003127 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 945556003128 proline aminopeptidase P II; Provisional; Region: PRK10879 945556003129 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 945556003130 active site 945556003131 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 945556003132 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 945556003133 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 945556003134 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 945556003135 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 945556003136 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 945556003137 DNA binding residues [nucleotide binding] 945556003138 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 945556003139 Lysine efflux permease [General function prediction only]; Region: COG1279 945556003140 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 945556003141 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556003142 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 945556003143 dimerization interface [polypeptide binding]; other site 945556003144 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 945556003145 Predicted methyltransferases [General function prediction only]; Region: COG0313 945556003146 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 945556003147 putative SAM binding site [chemical binding]; other site 945556003148 putative homodimer interface [polypeptide binding]; other site 945556003149 hypothetical protein; Provisional; Region: PRK14674 945556003150 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 945556003151 BON domain; Region: BON; pfam04972 945556003152 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 945556003153 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 945556003154 substrate binding pocket [chemical binding]; other site 945556003155 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 945556003156 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 945556003157 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 945556003158 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 945556003159 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 945556003160 putative NADH binding site [chemical binding]; other site 945556003161 putative active site [active] 945556003162 nudix motif; other site 945556003163 putative metal binding site [ion binding]; other site 945556003164 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 945556003165 RNA/DNA hybrid binding site [nucleotide binding]; other site 945556003166 active site 945556003167 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 945556003168 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 945556003169 active site 945556003170 catalytic site [active] 945556003171 substrate binding site [chemical binding]; other site 945556003172 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 945556003173 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 945556003174 N-acetyl-D-glucosamine binding site [chemical binding]; other site 945556003175 catalytic residue [active] 945556003176 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 945556003177 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 945556003178 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 945556003179 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 945556003180 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 945556003181 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 945556003182 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 945556003183 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 945556003184 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 945556003185 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 945556003186 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 945556003187 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 945556003188 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 945556003189 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 945556003190 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556003191 dimer interface [polypeptide binding]; other site 945556003192 conserved gate region; other site 945556003193 ABC-ATPase subunit interface; other site 945556003194 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 945556003195 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556003196 dimer interface [polypeptide binding]; other site 945556003197 conserved gate region; other site 945556003198 putative PBP binding loops; other site 945556003199 ABC-ATPase subunit interface; other site 945556003200 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 945556003201 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 945556003202 Walker A/P-loop; other site 945556003203 ATP binding site [chemical binding]; other site 945556003204 Q-loop/lid; other site 945556003205 ABC transporter signature motif; other site 945556003206 Walker B; other site 945556003207 D-loop; other site 945556003208 H-loop/switch region; other site 945556003209 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 945556003210 Walker A/P-loop; other site 945556003211 ATP binding site [chemical binding]; other site 945556003212 Q-loop/lid; other site 945556003213 ABC transporter signature motif; other site 945556003214 Walker B; other site 945556003215 D-loop; other site 945556003216 H-loop/switch region; other site 945556003217 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 945556003218 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 945556003219 putative active site [active] 945556003220 putative FMN binding site [chemical binding]; other site 945556003221 putative substrate binding site [chemical binding]; other site 945556003222 putative catalytic residue [active] 945556003223 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 945556003224 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 945556003225 N-terminal plug; other site 945556003226 ligand-binding site [chemical binding]; other site 945556003227 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 945556003228 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 945556003229 dimer interface [polypeptide binding]; other site 945556003230 catalytic site [active] 945556003231 putative active site [active] 945556003232 putative substrate binding site [chemical binding]; other site 945556003233 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 945556003234 active site 945556003235 substrate binding pocket [chemical binding]; other site 945556003236 dimer interface [polypeptide binding]; other site 945556003237 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 945556003238 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 945556003239 metal binding site [ion binding]; metal-binding site 945556003240 active site 945556003241 I-site; other site 945556003242 argininosuccinate synthase; Provisional; Region: PRK13820 945556003243 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 945556003244 ANP binding site [chemical binding]; other site 945556003245 Substrate Binding Site II [chemical binding]; other site 945556003246 Substrate Binding Site I [chemical binding]; other site 945556003247 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 945556003248 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 945556003249 active site 945556003250 FMN binding site [chemical binding]; other site 945556003251 2,4-decadienoyl-CoA binding site; other site 945556003252 catalytic residue [active] 945556003253 4Fe-4S cluster binding site [ion binding]; other site 945556003254 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 945556003255 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 945556003256 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 945556003257 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 945556003258 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556003259 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556003260 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 945556003261 Bor protein; Region: Lambda_Bor; pfam06291 945556003262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 945556003263 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 945556003264 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 945556003265 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 945556003266 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 945556003267 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 945556003268 Transcriptional regulators [Transcription]; Region: FadR; COG2186 945556003269 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556003270 DNA-binding site [nucleotide binding]; DNA binding site 945556003271 FCD domain; Region: FCD; pfam07729 945556003272 SnoaL-like domain; Region: SnoaL_2; pfam12680 945556003273 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 945556003274 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 945556003275 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 945556003276 tetrameric interface [polypeptide binding]; other site 945556003277 NAD binding site [chemical binding]; other site 945556003278 catalytic residues [active] 945556003279 substrate binding site [chemical binding]; other site 945556003280 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 945556003281 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 945556003282 AsnC family; Region: AsnC_trans_reg; pfam01037 945556003283 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 945556003284 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 945556003285 inhibitor-cofactor binding pocket; inhibition site 945556003286 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556003287 catalytic residue [active] 945556003288 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 945556003289 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 945556003290 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 945556003291 Pirin-related protein [General function prediction only]; Region: COG1741 945556003292 Pirin; Region: Pirin; pfam02678 945556003293 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 945556003294 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 945556003295 classical (c) SDRs; Region: SDR_c; cd05233 945556003296 short chain dehydrogenase; Provisional; Region: PRK05650 945556003297 NAD(P) binding site [chemical binding]; other site 945556003298 active site 945556003299 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 945556003300 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 945556003301 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 945556003302 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 945556003303 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 945556003304 active site 945556003305 purine riboside binding site [chemical binding]; other site 945556003306 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 945556003307 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 945556003308 RNA/DNA hybrid binding site [nucleotide binding]; other site 945556003309 active site 945556003310 carbon storage regulator; Provisional; Region: PRK01712 945556003311 aspartate kinase; Reviewed; Region: PRK06635 945556003312 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 945556003313 putative nucleotide binding site [chemical binding]; other site 945556003314 putative catalytic residues [active] 945556003315 putative Mg ion binding site [ion binding]; other site 945556003316 putative aspartate binding site [chemical binding]; other site 945556003317 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 945556003318 putative allosteric regulatory site; other site 945556003319 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 945556003320 Protein of unknown function (DUF551); Region: DUF551; pfam04448 945556003321 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 945556003322 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 945556003323 Walker A motif; other site 945556003324 ATP binding site [chemical binding]; other site 945556003325 Walker B motif; other site 945556003326 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 945556003327 Predicted transcriptional regulator [Transcription]; Region: COG2932 945556003328 sequence-specific DNA binding site [nucleotide binding]; other site 945556003329 salt bridge; other site 945556003330 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 945556003331 Catalytic site [active] 945556003332 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 945556003333 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 945556003334 active site 945556003335 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 945556003336 Uncharacterized conserved protein (DUF2280); Region: DUF2280; pfam10045 945556003337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 945556003338 Terminase-like family; Region: Terminase_6; pfam03237 945556003339 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 945556003340 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 945556003341 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 945556003342 Phage protein (N4 Gp49/phage Sf6 gene 66) family; Region: Phage_gp49_66; pfam13876 945556003343 Putative ATP-dependent Lon protease; Region: Lon_2; cl11979 945556003344 Putative stress-responsive nuclear envelope protein; Region: Ish1; pfam10281 945556003345 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 945556003346 YcfA-like protein; Region: YcfA; pfam07927 945556003347 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 945556003348 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 945556003349 YedD-like protein; Region: YedD; cl08117 945556003350 Phage-related minor tail protein [Function unknown]; Region: COG5281 945556003351 tape measure domain; Region: tape_meas_nterm; TIGR02675 945556003352 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 945556003353 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 945556003354 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 945556003355 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 945556003356 Short C-terminal domain; Region: SHOCT; pfam09851 945556003357 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 945556003358 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 945556003359 active site 945556003360 DNA binding site [nucleotide binding] 945556003361 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 945556003362 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 945556003363 Catalytic site [active] 945556003364 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 945556003365 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 945556003366 active site 945556003367 Int/Topo IB signature motif; other site 945556003368 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 945556003369 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 945556003370 motif 1; other site 945556003371 active site 945556003372 motif 2; other site 945556003373 motif 3; other site 945556003374 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 945556003375 DHHA1 domain; Region: DHHA1; pfam02272 945556003376 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 945556003377 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 945556003378 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 945556003379 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 945556003380 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 945556003381 dimer interface [polypeptide binding]; other site 945556003382 motif 1; other site 945556003383 active site 945556003384 motif 2; other site 945556003385 motif 3; other site 945556003386 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 945556003387 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 945556003388 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 945556003389 Peptidase family M48; Region: Peptidase_M48; pfam01435 945556003390 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 945556003391 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 945556003392 active site 945556003393 catalytic tetrad [active] 945556003394 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 945556003395 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 945556003396 ligand binding site [chemical binding]; other site 945556003397 flexible hinge region; other site 945556003398 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 945556003399 putative switch regulator; other site 945556003400 non-specific DNA interactions [nucleotide binding]; other site 945556003401 DNA binding site [nucleotide binding] 945556003402 sequence specific DNA binding site [nucleotide binding]; other site 945556003403 putative cAMP binding site [chemical binding]; other site 945556003404 OsmC-like protein; Region: OsmC; cl00767 945556003405 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 945556003406 Coenzyme A binding pocket [chemical binding]; other site 945556003407 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 945556003408 Peptidase family M23; Region: Peptidase_M23; pfam01551 945556003409 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 945556003410 Clp amino terminal domain; Region: Clp_N; pfam02861 945556003411 Clp amino terminal domain; Region: Clp_N; pfam02861 945556003412 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 945556003413 Walker A motif; other site 945556003414 ATP binding site [chemical binding]; other site 945556003415 Walker B motif; other site 945556003416 arginine finger; other site 945556003417 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 945556003418 Walker A motif; other site 945556003419 ATP binding site [chemical binding]; other site 945556003420 Walker B motif; other site 945556003421 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 945556003422 Competence-damaged protein; Region: CinA; pfam02464 945556003423 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 945556003424 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 945556003425 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 945556003426 DNA methylase; Region: N6_N4_Mtase; cl17433 945556003427 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 945556003428 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 945556003429 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 945556003430 dihydroorotase; Validated; Region: pyrC; PRK09357 945556003431 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 945556003432 active site 945556003433 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 945556003434 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 945556003435 ligand binding site [chemical binding]; other site 945556003436 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 945556003437 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 945556003438 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 945556003439 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 945556003440 putative C-terminal domain interface [polypeptide binding]; other site 945556003441 putative GSH binding site (G-site) [chemical binding]; other site 945556003442 putative dimer interface [polypeptide binding]; other site 945556003443 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 945556003444 putative N-terminal domain interface [polypeptide binding]; other site 945556003445 putative dimer interface [polypeptide binding]; other site 945556003446 putative substrate binding pocket (H-site) [chemical binding]; other site 945556003447 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 945556003448 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 945556003449 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 945556003450 generic binding surface II; other site 945556003451 generic binding surface I; other site 945556003452 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 945556003453 putative active site [active] 945556003454 putative catalytic site [active] 945556003455 putative Mg binding site IVb [ion binding]; other site 945556003456 putative phosphate binding site [ion binding]; other site 945556003457 putative DNA binding site [nucleotide binding]; other site 945556003458 putative Mg binding site IVa [ion binding]; other site 945556003459 glutathionine S-transferase; Provisional; Region: PRK10542 945556003460 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 945556003461 C-terminal domain interface [polypeptide binding]; other site 945556003462 GSH binding site (G-site) [chemical binding]; other site 945556003463 dimer interface [polypeptide binding]; other site 945556003464 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 945556003465 dimer interface [polypeptide binding]; other site 945556003466 N-terminal domain interface [polypeptide binding]; other site 945556003467 substrate binding pocket (H-site) [chemical binding]; other site 945556003468 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 945556003469 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 945556003470 catalytic residue [active] 945556003471 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 945556003472 catalytic residues [active] 945556003473 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 945556003474 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 945556003475 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 945556003476 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 945556003477 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 945556003478 S-adenosylmethionine binding site [chemical binding]; other site 945556003479 KTSC domain; Region: KTSC; pfam13619 945556003480 peroxiredoxin; Region: AhpC; TIGR03137 945556003481 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 945556003482 dimer interface [polypeptide binding]; other site 945556003483 decamer (pentamer of dimers) interface [polypeptide binding]; other site 945556003484 catalytic triad [active] 945556003485 peroxidatic and resolving cysteines [active] 945556003486 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 945556003487 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 945556003488 ATP binding site [chemical binding]; other site 945556003489 putative Mg++ binding site [ion binding]; other site 945556003490 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 945556003491 nucleotide binding region [chemical binding]; other site 945556003492 ATP-binding site [chemical binding]; other site 945556003493 Helicase associated domain (HA2); Region: HA2; pfam04408 945556003494 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 945556003495 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 945556003496 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 945556003497 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 945556003498 dimer interface [polypeptide binding]; other site 945556003499 active site 945556003500 CoA binding pocket [chemical binding]; other site 945556003501 outer membrane porin, OprD family; Region: OprD; pfam03573 945556003502 benzoate transport; Region: 2A0115; TIGR00895 945556003503 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 945556003504 putative substrate translocation pore; other site 945556003505 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 945556003506 putative substrate translocation pore; other site 945556003507 benzoate transporter; Region: benE; TIGR00843 945556003508 Benzoate membrane transport protein; Region: BenE; pfam03594 945556003509 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 945556003510 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 945556003511 putative NAD(P) binding site [chemical binding]; other site 945556003512 active site 945556003513 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 945556003514 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 945556003515 catalytic loop [active] 945556003516 iron binding site [ion binding]; other site 945556003517 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 945556003518 FAD binding pocket [chemical binding]; other site 945556003519 FAD binding motif [chemical binding]; other site 945556003520 phosphate binding motif [ion binding]; other site 945556003521 beta-alpha-beta structure motif; other site 945556003522 NAD binding pocket [chemical binding]; other site 945556003523 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 945556003524 inter-subunit interface; other site 945556003525 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 945556003526 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 945556003527 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 945556003528 putative alpha subunit interface [polypeptide binding]; other site 945556003529 putative active site [active] 945556003530 putative substrate binding site [chemical binding]; other site 945556003531 Fe binding site [ion binding]; other site 945556003532 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 945556003533 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556003534 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 945556003535 dimerizarion interface [polypeptide binding]; other site 945556003536 CrgA pocket; other site 945556003537 substrate binding pocket [chemical binding]; other site 945556003538 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 945556003539 metal-binding site [ion binding] 945556003540 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 945556003541 metal-binding site [ion binding] 945556003542 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 945556003543 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 945556003544 metal-binding site [ion binding] 945556003545 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 945556003546 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 945556003547 motif II; other site 945556003548 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 945556003549 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 945556003550 DNA binding residues [nucleotide binding] 945556003551 dimer interface [polypeptide binding]; other site 945556003552 copper binding site [ion binding]; other site 945556003553 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 945556003554 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 945556003555 dimerization interface [polypeptide binding]; other site 945556003556 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 945556003557 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 945556003558 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 945556003559 generic binding surface II; other site 945556003560 generic binding surface I; other site 945556003561 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 945556003562 Predicted transcriptional regulator [Transcription]; Region: COG2932 945556003563 non-specific DNA binding site [nucleotide binding]; other site 945556003564 salt bridge; other site 945556003565 sequence-specific DNA binding site [nucleotide binding]; other site 945556003566 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 945556003567 Catalytic site [active] 945556003568 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 945556003569 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 945556003570 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 945556003571 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 945556003572 DNA-binding site [nucleotide binding]; DNA binding site 945556003573 RNA-binding motif; other site 945556003574 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 945556003575 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 945556003576 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 945556003577 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 945556003578 putative substrate translocation pore; other site 945556003579 Predicted transcriptional regulators [Transcription]; Region: COG1733 945556003580 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 945556003581 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 945556003582 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 945556003583 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 945556003584 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 945556003585 cofactor binding site; other site 945556003586 DNA binding site [nucleotide binding] 945556003587 substrate interaction site [chemical binding]; other site 945556003588 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 945556003589 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 945556003590 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 945556003591 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 945556003592 ATP binding site [chemical binding]; other site 945556003593 Mg2+ binding site [ion binding]; other site 945556003594 G-X-G motif; other site 945556003595 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 945556003596 additional DNA contacts [nucleotide binding]; other site 945556003597 mismatch recognition site; other site 945556003598 active site 945556003599 zinc binding site [ion binding]; other site 945556003600 DNA intercalation site [nucleotide binding]; other site 945556003601 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 945556003602 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 945556003603 active site 945556003604 HIGH motif; other site 945556003605 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 945556003606 KMSKS motif; other site 945556003607 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 945556003608 tRNA binding surface [nucleotide binding]; other site 945556003609 anticodon binding site; other site 945556003610 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 945556003611 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 945556003612 putative active site [active] 945556003613 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 945556003614 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 945556003615 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 945556003616 active site 945556003617 motif I; other site 945556003618 motif II; other site 945556003619 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 945556003620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 945556003621 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 945556003622 OstA-like protein; Region: OstA; pfam03968 945556003623 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 945556003624 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 945556003625 Walker A/P-loop; other site 945556003626 ATP binding site [chemical binding]; other site 945556003627 Q-loop/lid; other site 945556003628 ABC transporter signature motif; other site 945556003629 Walker B; other site 945556003630 D-loop; other site 945556003631 H-loop/switch region; other site 945556003632 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 945556003633 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 945556003634 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 945556003635 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 945556003636 Walker A/P-loop; other site 945556003637 ATP binding site [chemical binding]; other site 945556003638 Q-loop/lid; other site 945556003639 ABC transporter signature motif; other site 945556003640 Walker B; other site 945556003641 D-loop; other site 945556003642 H-loop/switch region; other site 945556003643 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 945556003644 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 945556003645 HlyD family secretion protein; Region: HlyD_3; pfam13437 945556003646 Uncharacterized conserved protein [Function unknown]; Region: COG1739 945556003647 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 945556003648 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; cd00208 945556003649 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 945556003650 putative trimer interface [polypeptide binding]; other site 945556003651 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 945556003652 trimer interface [polypeptide binding]; other site 945556003653 active site 945556003654 substrate binding site [chemical binding]; other site 945556003655 putative CoA binding site [chemical binding]; other site 945556003656 CoA binding site [chemical binding]; other site 945556003657 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 945556003658 Ligand Binding Site [chemical binding]; other site 945556003659 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 945556003660 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 945556003661 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 945556003662 Ferredoxin [Energy production and conversion]; Region: COG1146 945556003663 4Fe-4S binding domain; Region: Fer4; pfam00037 945556003664 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 945556003665 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 945556003666 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 945556003667 Coenzyme A binding pocket [chemical binding]; other site 945556003668 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 945556003669 MutS domain I; Region: MutS_I; pfam01624 945556003670 MutS domain II; Region: MutS_II; pfam05188 945556003671 MutS domain III; Region: MutS_III; pfam05192 945556003672 MutS domain V; Region: MutS_V; pfam00488 945556003673 Walker A/P-loop; other site 945556003674 ATP binding site [chemical binding]; other site 945556003675 Q-loop/lid; other site 945556003676 ABC transporter signature motif; other site 945556003677 Walker B; other site 945556003678 D-loop; other site 945556003679 H-loop/switch region; other site 945556003680 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 945556003681 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 945556003682 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 945556003683 putative acyl-acceptor binding pocket; other site 945556003684 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556003685 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556003686 benzoate transport; Region: 2A0115; TIGR00895 945556003687 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 945556003688 putative substrate translocation pore; other site 945556003689 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 945556003690 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 945556003691 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 945556003692 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 945556003693 DNA binding residues [nucleotide binding] 945556003694 putative dimer interface [polypeptide binding]; other site 945556003695 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 945556003696 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 945556003697 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 945556003698 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 945556003699 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 945556003700 Coenzyme A binding pocket [chemical binding]; other site 945556003701 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 945556003702 transcriptional regulator, ArgP family; Region: argP; TIGR03298 945556003703 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556003704 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 945556003705 dimerization interface [polypeptide binding]; other site 945556003706 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 945556003707 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 945556003708 putative active site [active] 945556003709 hypothetical protein; Provisional; Region: PRK05463 945556003710 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 945556003711 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 945556003712 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 945556003713 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 945556003714 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 945556003715 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 945556003716 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 945556003717 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 945556003718 carboxyltransferase (CT) interaction site; other site 945556003719 biotinylation site [posttranslational modification]; other site 945556003720 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 945556003721 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 945556003722 putative Cl- selectivity filter; other site 945556003723 putative pore gating glutamate residue; other site 945556003724 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 945556003725 Sel1-like repeats; Region: SEL1; smart00671 945556003726 Sel1-like repeats; Region: SEL1; smart00671 945556003727 Sel1-like repeats; Region: SEL1; smart00671 945556003728 Sel1-like repeats; Region: SEL1; smart00671 945556003729 Sel1-like repeats; Region: SEL1; smart00671 945556003730 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556003731 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556003732 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 945556003733 putative hydrophobic ligand binding site [chemical binding]; other site 945556003734 protein interface [polypeptide binding]; other site 945556003735 gate; other site 945556003736 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 945556003737 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 945556003738 NAD binding site [chemical binding]; other site 945556003739 catalytic Zn binding site [ion binding]; other site 945556003740 structural Zn binding site [ion binding]; other site 945556003741 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 945556003742 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 945556003743 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 945556003744 urea carboxylase; Region: urea_carbox; TIGR02712 945556003745 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 945556003746 ATP-grasp domain; Region: ATP-grasp_4; cl17255 945556003747 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 945556003748 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 945556003749 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 945556003750 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 945556003751 carboxyltransferase (CT) interaction site; other site 945556003752 biotinylation site [posttranslational modification]; other site 945556003753 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 945556003754 Predicted transcriptional regulators [Transcription]; Region: COG1733 945556003755 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 945556003756 putative DNA binding site [nucleotide binding]; other site 945556003757 putative Zn2+ binding site [ion binding]; other site 945556003758 nickel responsive regulator; Provisional; Region: PRK04460 945556003759 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 945556003760 allophanate hydrolase; Provisional; Region: PRK08186 945556003761 Amidase; Region: Amidase; cl11426 945556003762 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 945556003763 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 945556003764 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 945556003765 Walker A/P-loop; other site 945556003766 ATP binding site [chemical binding]; other site 945556003767 Q-loop/lid; other site 945556003768 ABC transporter signature motif; other site 945556003769 Walker B; other site 945556003770 D-loop; other site 945556003771 H-loop/switch region; other site 945556003772 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 945556003773 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556003774 dimer interface [polypeptide binding]; other site 945556003775 conserved gate region; other site 945556003776 putative PBP binding loops; other site 945556003777 ABC-ATPase subunit interface; other site 945556003778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 945556003779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 945556003780 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 945556003781 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 945556003782 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 945556003783 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 945556003784 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 945556003785 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 945556003786 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 945556003787 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 945556003788 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 945556003789 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 945556003790 nucleoside/Zn binding site; other site 945556003791 dimer interface [polypeptide binding]; other site 945556003792 catalytic motif [active] 945556003793 putative cyanate transporter; Provisional; Region: cynX; PRK09705 945556003794 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 945556003795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 945556003796 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 945556003797 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 945556003798 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 945556003799 Coenzyme A binding pocket [chemical binding]; other site 945556003800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 945556003801 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 945556003802 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 945556003803 DNA binding residues [nucleotide binding] 945556003804 dimer interface [polypeptide binding]; other site 945556003805 [2Fe-2S] cluster binding site [ion binding]; other site 945556003806 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 945556003807 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 945556003808 Domain of unknown function (DUF333); Region: DUF333; pfam03891 945556003809 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 945556003810 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 945556003811 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 945556003812 active site 945556003813 dimer interface [polypeptide binding]; other site 945556003814 catalytic residue [active] 945556003815 EamA-like transporter family; Region: EamA; pfam00892 945556003816 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 945556003817 Transcriptional regulators [Transcription]; Region: FadR; COG2186 945556003818 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556003819 DNA-binding site [nucleotide binding]; DNA binding site 945556003820 FCD domain; Region: FCD; pfam07729 945556003821 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 945556003822 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 945556003823 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 945556003824 hydroxyglutarate oxidase; Provisional; Region: PRK11728 945556003825 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 945556003826 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 945556003827 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 945556003828 PAS fold; Region: PAS_4; pfam08448 945556003829 Helix-turn-helix domain; Region: HTH_18; pfam12833 945556003830 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556003831 metabolite-proton symporter; Region: 2A0106; TIGR00883 945556003832 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 945556003833 putative substrate translocation pore; other site 945556003834 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 945556003835 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 945556003836 dimer interface [polypeptide binding]; other site 945556003837 NADP binding site [chemical binding]; other site 945556003838 catalytic residues [active] 945556003839 amino acid transporter; Region: 2A0306; TIGR00909 945556003840 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 945556003841 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 945556003842 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 945556003843 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 945556003844 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 945556003845 substrate binding site [chemical binding]; other site 945556003846 dimer interface [polypeptide binding]; other site 945556003847 NADP binding site [chemical binding]; other site 945556003848 catalytic residues [active] 945556003849 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 945556003850 substrate binding site [chemical binding]; other site 945556003851 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 945556003852 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 945556003853 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 945556003854 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 945556003855 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 945556003856 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 945556003857 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 945556003858 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 945556003859 FAD binding pocket [chemical binding]; other site 945556003860 FAD binding motif [chemical binding]; other site 945556003861 phosphate binding motif [ion binding]; other site 945556003862 beta-alpha-beta structure motif; other site 945556003863 NAD(p) ribose binding residues [chemical binding]; other site 945556003864 NAD binding pocket [chemical binding]; other site 945556003865 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 945556003866 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 945556003867 catalytic loop [active] 945556003868 iron binding site [ion binding]; other site 945556003869 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 945556003870 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 945556003871 substrate binding site [chemical binding]; other site 945556003872 oxyanion hole (OAH) forming residues; other site 945556003873 trimer interface [polypeptide binding]; other site 945556003874 enoyl-CoA hydratase; Provisional; Region: PRK08140 945556003875 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 945556003876 substrate binding site [chemical binding]; other site 945556003877 oxyanion hole (OAH) forming residues; other site 945556003878 trimer interface [polypeptide binding]; other site 945556003879 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 945556003880 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 945556003881 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 945556003882 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 945556003883 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 945556003884 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 945556003885 dimer interface [polypeptide binding]; other site 945556003886 active site 945556003887 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 945556003888 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 945556003889 acyl-activating enzyme (AAE) consensus motif; other site 945556003890 AMP binding site [chemical binding]; other site 945556003891 active site 945556003892 CoA binding site [chemical binding]; other site 945556003893 PaaX-like protein; Region: PaaX; pfam07848 945556003894 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 945556003895 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 945556003896 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 945556003897 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 945556003898 putative trimer interface [polypeptide binding]; other site 945556003899 putative metal binding site [ion binding]; other site 945556003900 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 945556003901 CoenzymeA binding site [chemical binding]; other site 945556003902 subunit interaction site [polypeptide binding]; other site 945556003903 PHB binding site; other site 945556003904 Protein of unknown function, DUF596; Region: DUF596; cl10492 945556003905 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 945556003906 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 945556003907 Sel1-like repeats; Region: SEL1; smart00671 945556003908 Sel1-like repeats; Region: SEL1; smart00671 945556003909 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 945556003910 catalytic core [active] 945556003911 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 945556003912 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 945556003913 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 945556003914 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 945556003915 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 945556003916 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 945556003917 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 945556003918 dimer interface [polypeptide binding]; other site 945556003919 PYR/PP interface [polypeptide binding]; other site 945556003920 TPP binding site [chemical binding]; other site 945556003921 substrate binding site [chemical binding]; other site 945556003922 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 945556003923 TPP-binding site [chemical binding]; other site 945556003924 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 945556003925 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556003926 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556003927 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 945556003928 putative effector binding pocket; other site 945556003929 dimerization interface [polypeptide binding]; other site 945556003930 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 945556003931 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 945556003932 active site 945556003933 catalytic residues [active] 945556003934 metal binding site [ion binding]; metal-binding site 945556003935 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 945556003936 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 945556003937 ATP-grasp domain; Region: ATP-grasp_4; cl17255 945556003938 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 945556003939 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 945556003940 carboxyltransferase (CT) interaction site; other site 945556003941 biotinylation site [posttranslational modification]; other site 945556003942 enoyl-CoA hydratase; Provisional; Region: PRK05995 945556003943 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 945556003944 substrate binding site [chemical binding]; other site 945556003945 oxyanion hole (OAH) forming residues; other site 945556003946 trimer interface [polypeptide binding]; other site 945556003947 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 945556003948 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 945556003949 isovaleryl-CoA dehydrogenase; Region: PLN02519 945556003950 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 945556003951 substrate binding site [chemical binding]; other site 945556003952 FAD binding site [chemical binding]; other site 945556003953 catalytic base [active] 945556003954 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556003955 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556003956 AMP-binding domain protein; Validated; Region: PRK08315 945556003957 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 945556003958 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 945556003959 acyl-activating enzyme (AAE) consensus motif; other site 945556003960 putative AMP binding site [chemical binding]; other site 945556003961 putative active site [active] 945556003962 putative CoA binding site [chemical binding]; other site 945556003963 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 945556003964 S-adenosylmethionine binding site [chemical binding]; other site 945556003965 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 945556003966 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 945556003967 active site 945556003968 catalytic triad [active] 945556003969 oxyanion hole [active] 945556003970 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556003971 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556003972 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 945556003973 putative effector binding pocket; other site 945556003974 dimerization interface [polypeptide binding]; other site 945556003975 Competence-damaged protein; Region: CinA; pfam02464 945556003976 hydroperoxidase II; Provisional; Region: katE; PRK11249 945556003977 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 945556003978 tetramer interface [polypeptide binding]; other site 945556003979 heme binding pocket [chemical binding]; other site 945556003980 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 945556003981 domain interactions; other site 945556003982 short chain dehydrogenase; Provisional; Region: PRK06701 945556003983 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 945556003984 NAD binding site [chemical binding]; other site 945556003985 metal binding site [ion binding]; metal-binding site 945556003986 active site 945556003987 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 945556003988 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 945556003989 Catalytic site [active] 945556003990 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 945556003991 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 945556003992 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 945556003993 putative DNA binding site [nucleotide binding]; other site 945556003994 putative Zn2+ binding site [ion binding]; other site 945556003995 AsnC family; Region: AsnC_trans_reg; pfam01037 945556003996 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 945556003997 Na binding site [ion binding]; other site 945556003998 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 945556003999 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 945556004000 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 945556004001 dimer interface [polypeptide binding]; other site 945556004002 phosphorylation site [posttranslational modification] 945556004003 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 945556004004 ATP binding site [chemical binding]; other site 945556004005 Mg2+ binding site [ion binding]; other site 945556004006 G-X-G motif; other site 945556004007 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 945556004008 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 945556004009 active site 945556004010 phosphorylation site [posttranslational modification] 945556004011 intermolecular recognition site; other site 945556004012 dimerization interface [polypeptide binding]; other site 945556004013 Response regulator receiver domain; Region: Response_reg; pfam00072 945556004014 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 945556004015 active site 945556004016 phosphorylation site [posttranslational modification] 945556004017 intermolecular recognition site; other site 945556004018 dimerization interface [polypeptide binding]; other site 945556004019 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 945556004020 DNA binding residues [nucleotide binding] 945556004021 dimerization interface [polypeptide binding]; other site 945556004022 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 945556004023 Coenzyme A binding pocket [chemical binding]; other site 945556004024 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556004025 dimer interface [polypeptide binding]; other site 945556004026 conserved gate region; other site 945556004027 putative PBP binding loops; other site 945556004028 ABC-ATPase subunit interface; other site 945556004029 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556004030 dimer interface [polypeptide binding]; other site 945556004031 conserved gate region; other site 945556004032 putative PBP binding loops; other site 945556004033 ABC-ATPase subunit interface; other site 945556004034 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 945556004035 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 945556004036 Walker A/P-loop; other site 945556004037 ATP binding site [chemical binding]; other site 945556004038 Q-loop/lid; other site 945556004039 ABC transporter signature motif; other site 945556004040 Walker B; other site 945556004041 D-loop; other site 945556004042 H-loop/switch region; other site 945556004043 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 945556004044 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 945556004045 substrate binding pocket [chemical binding]; other site 945556004046 membrane-bound complex binding site; other site 945556004047 hinge residues; other site 945556004048 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 945556004049 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 945556004050 substrate binding pocket [chemical binding]; other site 945556004051 membrane-bound complex binding site; other site 945556004052 hinge residues; other site 945556004053 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556004054 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556004055 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 945556004056 putative effector binding pocket; other site 945556004057 dimerization interface [polypeptide binding]; other site 945556004058 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 945556004059 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 945556004060 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 945556004061 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 945556004062 catalytic residue [active] 945556004063 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 945556004064 trimer interface [polypeptide binding]; other site 945556004065 active site 945556004066 substrate binding site [chemical binding]; other site 945556004067 CoA binding site [chemical binding]; other site 945556004068 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 945556004069 active site residue [active] 945556004070 short chain dehydrogenase; Provisional; Region: PRK12937 945556004071 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 945556004072 NADP binding site [chemical binding]; other site 945556004073 homodimer interface [polypeptide binding]; other site 945556004074 active site 945556004075 substrate binding site [chemical binding]; other site 945556004076 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556004077 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556004078 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 945556004079 putative effector binding pocket; other site 945556004080 putative dimerization interface [polypeptide binding]; other site 945556004081 putative S-transferase; Provisional; Region: PRK11752 945556004082 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 945556004083 C-terminal domain interface [polypeptide binding]; other site 945556004084 GSH binding site (G-site) [chemical binding]; other site 945556004085 dimer interface [polypeptide binding]; other site 945556004086 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 945556004087 dimer interface [polypeptide binding]; other site 945556004088 N-terminal domain interface [polypeptide binding]; other site 945556004089 active site 945556004090 glutathione S-transferase; Provisional; Region: PRK15113 945556004091 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 945556004092 C-terminal domain interface [polypeptide binding]; other site 945556004093 GSH binding site (G-site) [chemical binding]; other site 945556004094 dimer interface [polypeptide binding]; other site 945556004095 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 945556004096 putative dimer interface [polypeptide binding]; other site 945556004097 N-terminal domain interface [polypeptide binding]; other site 945556004098 putative substrate binding pocket (H-site) [chemical binding]; other site 945556004099 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556004100 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556004101 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 945556004102 putative dimerization interface [polypeptide binding]; other site 945556004103 LrgA family; Region: LrgA; cl00608 945556004104 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 945556004105 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 945556004106 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556004107 DNA-binding site [nucleotide binding]; DNA binding site 945556004108 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 945556004109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556004110 homodimer interface [polypeptide binding]; other site 945556004111 catalytic residue [active] 945556004112 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 945556004113 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 945556004114 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 945556004115 Major Facilitator Superfamily; Region: MFS_1; pfam07690 945556004116 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 945556004117 putative substrate translocation pore; other site 945556004118 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 945556004119 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 945556004120 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 945556004121 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 945556004122 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 945556004123 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 945556004124 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 945556004125 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 945556004126 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 945556004127 Malonate transporter MadL subunit; Region: MadL; cl04273 945556004128 malonate transporter, MadM subunit; Region: malonate_madM; TIGR00808 945556004129 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556004130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556004131 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 945556004132 putative dimerization interface [polypeptide binding]; other site 945556004133 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 945556004134 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556004135 DNA-binding site [nucleotide binding]; DNA binding site 945556004136 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 945556004137 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556004138 homodimer interface [polypeptide binding]; other site 945556004139 catalytic residue [active] 945556004140 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 945556004141 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 945556004142 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 945556004143 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556004144 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 945556004145 active site 945556004146 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 945556004147 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 945556004148 active site 945556004149 non-prolyl cis peptide bond; other site 945556004150 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 945556004151 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 945556004152 substrate binding pocket [chemical binding]; other site 945556004153 membrane-bound complex binding site; other site 945556004154 hinge residues; other site 945556004155 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 945556004156 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 945556004157 Walker A/P-loop; other site 945556004158 ATP binding site [chemical binding]; other site 945556004159 Q-loop/lid; other site 945556004160 ABC transporter signature motif; other site 945556004161 Walker B; other site 945556004162 D-loop; other site 945556004163 H-loop/switch region; other site 945556004164 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 945556004165 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556004166 dimer interface [polypeptide binding]; other site 945556004167 conserved gate region; other site 945556004168 putative PBP binding loops; other site 945556004169 ABC-ATPase subunit interface; other site 945556004170 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 945556004171 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 945556004172 active site 945556004173 iron coordination sites [ion binding]; other site 945556004174 substrate binding pocket [chemical binding]; other site 945556004175 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 945556004176 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 945556004177 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 945556004178 Na binding site [ion binding]; other site 945556004179 putative substrate binding site [chemical binding]; other site 945556004180 Transcriptional regulators [Transcription]; Region: GntR; COG1802 945556004181 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556004182 DNA-binding site [nucleotide binding]; DNA binding site 945556004183 FCD domain; Region: FCD; pfam07729 945556004184 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 945556004185 putative effector binding pocket; other site 945556004186 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556004187 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 945556004188 Isochorismatase family; Region: Isochorismatase; pfam00857 945556004189 catalytic triad [active] 945556004190 dimer interface [polypeptide binding]; other site 945556004191 conserved cis-peptide bond; other site 945556004192 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 945556004193 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 945556004194 active site 945556004195 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 945556004196 ArsC family; Region: ArsC; pfam03960 945556004197 catalytic residues [active] 945556004198 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 945556004199 dimerization interface [polypeptide binding]; other site 945556004200 putative DNA binding site [nucleotide binding]; other site 945556004201 putative Zn2+ binding site [ion binding]; other site 945556004202 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 945556004203 arsenical-resistance protein; Region: acr3; TIGR00832 945556004204 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556004205 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556004206 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 945556004207 putative dimerization interface [polypeptide binding]; other site 945556004208 putative substrate binding pocket [chemical binding]; other site 945556004209 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 945556004210 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 945556004211 catalytic residue [active] 945556004212 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 945556004213 catalytic residues [active] 945556004214 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 945556004215 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 945556004216 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 945556004217 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 945556004218 TPR motif; other site 945556004219 binding surface 945556004220 serine O-acetyltransferase; Region: cysE; TIGR01172 945556004221 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 945556004222 trimer interface [polypeptide binding]; other site 945556004223 active site 945556004224 substrate binding site [chemical binding]; other site 945556004225 CoA binding site [chemical binding]; other site 945556004226 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 945556004227 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 945556004228 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 945556004229 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 945556004230 putative active site [active] 945556004231 putative PHP Thumb interface [polypeptide binding]; other site 945556004232 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 945556004233 generic binding surface I; other site 945556004234 generic binding surface II; other site 945556004235 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 945556004236 active site 945556004237 homodimer interface [polypeptide binding]; other site 945556004238 homotetramer interface [polypeptide binding]; other site 945556004239 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 945556004240 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 945556004241 aminotransferase AlaT; Validated; Region: PRK09265 945556004242 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 945556004243 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556004244 homodimer interface [polypeptide binding]; other site 945556004245 catalytic residue [active] 945556004246 methionine sulfoxide reductase B; Provisional; Region: PRK00222 945556004247 SelR domain; Region: SelR; pfam01641 945556004248 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 945556004249 catalytic residues [active] 945556004250 dimer interface [polypeptide binding]; other site 945556004251 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 945556004252 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556004253 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 945556004254 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 945556004255 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 945556004256 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556004257 homodimer interface [polypeptide binding]; other site 945556004258 catalytic residue [active] 945556004259 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 945556004260 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 945556004261 metal binding triad; other site 945556004262 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 945556004263 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 945556004264 Zn2+ binding site [ion binding]; other site 945556004265 Mg2+ binding site [ion binding]; other site 945556004266 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 945556004267 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 945556004268 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 945556004269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556004270 ATP-grasp domain; Region: ATP-grasp; pfam02222 945556004271 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cl01268 945556004272 trimer interface [polypeptide binding]; other site 945556004273 putative substrate binding pocket [chemical binding]; other site 945556004274 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 945556004275 active site 1 [active] 945556004276 dimer interface [polypeptide binding]; other site 945556004277 hexamer interface [polypeptide binding]; other site 945556004278 active site 2 [active] 945556004279 putative L-valine exporter; Provisional; Region: PRK10408 945556004280 AzlC protein; Region: AzlC; cl00570 945556004281 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 945556004282 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 945556004283 ligand binding site [chemical binding]; other site 945556004284 flexible hinge region; other site 945556004285 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 945556004286 putative switch regulator; other site 945556004287 non-specific DNA interactions [nucleotide binding]; other site 945556004288 DNA binding site [nucleotide binding] 945556004289 sequence specific DNA binding site [nucleotide binding]; other site 945556004290 putative cAMP binding site [chemical binding]; other site 945556004291 Predicted membrane protein [Function unknown]; Region: COG4539 945556004292 GTP-binding protein YchF; Reviewed; Region: PRK09601 945556004293 YchF GTPase; Region: YchF; cd01900 945556004294 G1 box; other site 945556004295 GTP/Mg2+ binding site [chemical binding]; other site 945556004296 Switch I region; other site 945556004297 G2 box; other site 945556004298 Switch II region; other site 945556004299 G3 box; other site 945556004300 G4 box; other site 945556004301 G5 box; other site 945556004302 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 945556004303 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556004304 dimer interface [polypeptide binding]; other site 945556004305 conserved gate region; other site 945556004306 ABC-ATPase subunit interface; other site 945556004307 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 945556004308 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 945556004309 Walker A/P-loop; other site 945556004310 ATP binding site [chemical binding]; other site 945556004311 Q-loop/lid; other site 945556004312 ABC transporter signature motif; other site 945556004313 Walker B; other site 945556004314 D-loop; other site 945556004315 H-loop/switch region; other site 945556004316 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 945556004317 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 945556004318 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 945556004319 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 945556004320 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 945556004321 active site 945556004322 non-prolyl cis peptide bond; other site 945556004323 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 945556004324 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 945556004325 Flavin binding site [chemical binding]; other site 945556004326 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 945556004327 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556004328 active site 945556004329 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 945556004330 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 945556004331 C-terminal domain interface [polypeptide binding]; other site 945556004332 GSH binding site (G-site) [chemical binding]; other site 945556004333 dimer interface [polypeptide binding]; other site 945556004334 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 945556004335 N-terminal domain interface [polypeptide binding]; other site 945556004336 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 945556004337 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 945556004338 substrate binding pocket [chemical binding]; other site 945556004339 membrane-bound complex binding site; other site 945556004340 hinge residues; other site 945556004341 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 945556004342 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556004343 dimer interface [polypeptide binding]; other site 945556004344 conserved gate region; other site 945556004345 putative PBP binding loops; other site 945556004346 ABC-ATPase subunit interface; other site 945556004347 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 945556004348 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556004349 dimer interface [polypeptide binding]; other site 945556004350 conserved gate region; other site 945556004351 putative PBP binding loops; other site 945556004352 ABC-ATPase subunit interface; other site 945556004353 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 945556004354 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 945556004355 Walker A/P-loop; other site 945556004356 ATP binding site [chemical binding]; other site 945556004357 Q-loop/lid; other site 945556004358 ABC transporter signature motif; other site 945556004359 Walker B; other site 945556004360 D-loop; other site 945556004361 H-loop/switch region; other site 945556004362 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 945556004363 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 945556004364 putative DNA binding site [nucleotide binding]; other site 945556004365 putative Zn2+ binding site [ion binding]; other site 945556004366 AsnC family; Region: AsnC_trans_reg; pfam01037 945556004367 hypothetical protein; Validated; Region: PRK00110 945556004368 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 945556004369 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 945556004370 putative acyl-acceptor binding pocket; other site 945556004371 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556004372 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556004373 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556004374 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556004375 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 945556004376 dimerization interface [polypeptide binding]; other site 945556004377 Predicted membrane protein [Function unknown]; Region: COG4125 945556004378 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 945556004379 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 945556004380 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 945556004381 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 945556004382 Na binding site [ion binding]; other site 945556004383 EamA-like transporter family; Region: EamA; pfam00892 945556004384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556004385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556004386 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 945556004387 dimerization interface [polypeptide binding]; other site 945556004388 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 945556004389 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 945556004390 Helix-turn-helix domain; Region: HTH_18; pfam12833 945556004391 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556004392 putative major fimbrial protein SthE; Provisional; Region: PRK15292 945556004393 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 945556004394 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 945556004395 PapC N-terminal domain; Region: PapC_N; pfam13954 945556004396 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 945556004397 PapC C-terminal domain; Region: PapC_C; pfam13953 945556004398 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 945556004399 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 945556004400 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 945556004401 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 945556004402 biotin synthase; Provisional; Region: PRK15108 945556004403 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 945556004404 FeS/SAM binding site; other site 945556004405 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 945556004406 epoxyqueuosine reductase; Region: TIGR00276 945556004407 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 945556004408 putative carbohydrate kinase; Provisional; Region: PRK10565 945556004409 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 945556004410 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 945556004411 putative substrate binding site [chemical binding]; other site 945556004412 putative ATP binding site [chemical binding]; other site 945556004413 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 945556004414 active site 945556004415 putative DNA-binding cleft [nucleotide binding]; other site 945556004416 dimer interface [polypeptide binding]; other site 945556004417 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 945556004418 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 945556004419 non-specific DNA binding site [nucleotide binding]; other site 945556004420 salt bridge; other site 945556004421 sequence-specific DNA binding site [nucleotide binding]; other site 945556004422 Cupin domain; Region: Cupin_2; cl17218 945556004423 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 945556004424 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 945556004425 Coenzyme A binding pocket [chemical binding]; other site 945556004426 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 945556004427 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 945556004428 N2,N2-dimethylguanosine tRNA methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TRM1; COG1867 945556004429 S-adenosylmethionine synthetase; Validated; Region: PRK05250 945556004430 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 945556004431 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 945556004432 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 945556004433 transketolase; Reviewed; Region: PRK12753 945556004434 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 945556004435 TPP-binding site [chemical binding]; other site 945556004436 dimer interface [polypeptide binding]; other site 945556004437 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 945556004438 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 945556004439 PYR/PP interface [polypeptide binding]; other site 945556004440 dimer interface [polypeptide binding]; other site 945556004441 TPP binding site [chemical binding]; other site 945556004442 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 945556004443 OsmC-like protein; Region: OsmC; pfam02566 945556004444 Uncharacterized conserved protein [Function unknown]; Region: COG2353 945556004445 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 945556004446 Predicted periplasmic protein [Function unknown]; Region: COG3698 945556004447 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 945556004448 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 945556004449 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 945556004450 S-adenosylmethionine binding site [chemical binding]; other site 945556004451 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 945556004452 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 945556004453 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 945556004454 Glutamate binding site [chemical binding]; other site 945556004455 NAD binding site [chemical binding]; other site 945556004456 catalytic residues [active] 945556004457 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 945556004458 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 945556004459 dimerization interface [polypeptide binding]; other site 945556004460 putative DNA binding site [nucleotide binding]; other site 945556004461 putative Zn2+ binding site [ion binding]; other site 945556004462 AsnC family; Region: AsnC_trans_reg; pfam01037 945556004463 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 945556004464 Na binding site [ion binding]; other site 945556004465 NAD-dependent deacetylase; Provisional; Region: PRK00481 945556004466 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 945556004467 NAD+ binding site [chemical binding]; other site 945556004468 substrate binding site [chemical binding]; other site 945556004469 Zn binding site [ion binding]; other site 945556004470 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 945556004471 lipoyl attachment site [posttranslational modification]; other site 945556004472 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 945556004473 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 945556004474 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556004475 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 945556004476 putative active site [active] 945556004477 putative catalytic site [active] 945556004478 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 945556004479 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 945556004480 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 945556004481 Walker A/P-loop; other site 945556004482 ATP binding site [chemical binding]; other site 945556004483 Q-loop/lid; other site 945556004484 ABC transporter signature motif; other site 945556004485 Walker B; other site 945556004486 D-loop; other site 945556004487 H-loop/switch region; other site 945556004488 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 945556004489 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 945556004490 serine/threonine transporter SstT; Provisional; Region: PRK13628 945556004491 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 945556004492 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 945556004493 dimerization interface [polypeptide binding]; other site 945556004494 putative DNA binding site [nucleotide binding]; other site 945556004495 putative Zn2+ binding site [ion binding]; other site 945556004496 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556004497 Cupin superfamily protein; Region: Cupin_4; pfam08007 945556004498 Maf-like protein; Region: Maf; pfam02545 945556004499 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 945556004500 active site 945556004501 dimer interface [polypeptide binding]; other site 945556004502 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 945556004503 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 945556004504 Phosphoglycerate kinase; Region: PGK; pfam00162 945556004505 substrate binding site [chemical binding]; other site 945556004506 hinge regions; other site 945556004507 ADP binding site [chemical binding]; other site 945556004508 catalytic site [active] 945556004509 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 945556004510 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 945556004511 intersubunit interface [polypeptide binding]; other site 945556004512 active site 945556004513 zinc binding site [ion binding]; other site 945556004514 Na+ binding site [ion binding]; other site 945556004515 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 945556004516 SurA N-terminal domain; Region: SurA_N; pfam09312 945556004517 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 945556004518 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 945556004519 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 945556004520 OstA-like protein; Region: OstA; cl00844 945556004521 Organic solvent tolerance protein; Region: OstA_C; pfam04453 945556004522 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 945556004523 Phosphotransferase enzyme family; Region: APH; pfam01636 945556004524 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 945556004525 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 945556004526 Substrate binding site; other site 945556004527 metal-binding site 945556004528 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 945556004529 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 945556004530 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 945556004531 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 945556004532 P-loop; other site 945556004533 Magnesium ion binding site [ion binding]; other site 945556004534 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 945556004535 Magnesium ion binding site [ion binding]; other site 945556004536 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 945556004537 ParB-like nuclease domain; Region: ParB; smart00470 945556004538 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 945556004539 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 945556004540 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 945556004541 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 945556004542 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 945556004543 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 945556004544 Walker A/P-loop; other site 945556004545 ATP binding site [chemical binding]; other site 945556004546 Q-loop/lid; other site 945556004547 ABC transporter signature motif; other site 945556004548 Walker B; other site 945556004549 D-loop; other site 945556004550 H-loop/switch region; other site 945556004551 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 945556004552 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 945556004553 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 945556004554 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 945556004555 Ligand binding site; other site 945556004556 oligomer interface; other site 945556004557 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 945556004558 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 945556004559 PilZ domain; Region: PilZ; cl01260 945556004560 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 945556004561 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 945556004562 active site 945556004563 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556004564 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556004565 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 945556004566 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 945556004567 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 945556004568 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 945556004569 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 945556004570 ligand binding site [chemical binding]; other site 945556004571 active site 945556004572 UGI interface [polypeptide binding]; other site 945556004573 catalytic site [active] 945556004574 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 945556004575 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 945556004576 substrate binding site [chemical binding]; other site 945556004577 oxyanion hole (OAH) forming residues; other site 945556004578 trimer interface [polypeptide binding]; other site 945556004579 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 945556004580 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 945556004581 nucleoside/Zn binding site; other site 945556004582 dimer interface [polypeptide binding]; other site 945556004583 catalytic motif [active] 945556004584 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 945556004585 putative hydrophobic ligand binding site [chemical binding]; other site 945556004586 protein interface [polypeptide binding]; other site 945556004587 gate; other site 945556004588 cytidylate kinase; Provisional; Region: cmk; PRK00023 945556004589 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 945556004590 CMP-binding site; other site 945556004591 The sites determining sugar specificity; other site 945556004592 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 945556004593 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 945556004594 RNA binding site [nucleotide binding]; other site 945556004595 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 945556004596 RNA binding site [nucleotide binding]; other site 945556004597 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 945556004598 RNA binding site [nucleotide binding]; other site 945556004599 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 945556004600 RNA binding site [nucleotide binding]; other site 945556004601 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 945556004602 RNA binding site [nucleotide binding]; other site 945556004603 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 945556004604 RNA binding site [nucleotide binding]; other site 945556004605 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 945556004606 IHF dimer interface [polypeptide binding]; other site 945556004607 IHF - DNA interface [nucleotide binding]; other site 945556004608 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 945556004609 active site 945556004610 dimer interface [polypeptide binding]; other site 945556004611 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 945556004612 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 945556004613 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 945556004614 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 945556004615 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 945556004616 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556004617 Predicted ATPase [General function prediction only]; Region: COG1485 945556004618 malate synthase G; Provisional; Region: PRK02999 945556004619 active site 945556004620 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 945556004621 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 945556004622 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 945556004623 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 945556004624 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 945556004625 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 945556004626 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 945556004627 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 945556004628 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 945556004629 N-terminal plug; other site 945556004630 ligand-binding site [chemical binding]; other site 945556004631 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 945556004632 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 945556004633 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 945556004634 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 945556004635 Peptidase M3 Thimet oligopeptidase (TOP) also includes neurolysin; Region: M3A_TOP; cd06455 945556004636 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 945556004637 active site 945556004638 Zn binding site [ion binding]; other site 945556004639 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 945556004640 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556004641 dimer interface [polypeptide binding]; other site 945556004642 conserved gate region; other site 945556004643 putative PBP binding loops; other site 945556004644 ABC-ATPase subunit interface; other site 945556004645 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 945556004646 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556004647 dimer interface [polypeptide binding]; other site 945556004648 conserved gate region; other site 945556004649 putative PBP binding loops; other site 945556004650 ABC-ATPase subunit interface; other site 945556004651 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 945556004652 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 945556004653 Walker A/P-loop; other site 945556004654 ATP binding site [chemical binding]; other site 945556004655 Q-loop/lid; other site 945556004656 ABC transporter signature motif; other site 945556004657 Walker B; other site 945556004658 D-loop; other site 945556004659 H-loop/switch region; other site 945556004660 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 945556004661 Walker A/P-loop; other site 945556004662 ATP binding site [chemical binding]; other site 945556004663 Q-loop/lid; other site 945556004664 ABC transporter signature motif; other site 945556004665 Walker B; other site 945556004666 D-loop; other site 945556004667 H-loop/switch region; other site 945556004668 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 945556004669 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 945556004670 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 945556004671 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 945556004672 active site 945556004673 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 945556004674 catalytic core [active] 945556004675 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 945556004676 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 945556004677 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 945556004678 NAD binding site [chemical binding]; other site 945556004679 active site 945556004680 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 945556004681 GST_N family, 2 repeats of the N-terminal domain of soluble GSTs (2 GST_N) subfamily; composed of uncharacterized proteins. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a...; Region: GST_N_2GST_N; cd03041 945556004682 putative C-terminal domain interface [polypeptide binding]; other site 945556004683 putative GSH binding site (G-site) [chemical binding]; other site 945556004684 putative dimer interface [polypeptide binding]; other site 945556004685 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 945556004686 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 945556004687 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 945556004688 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 945556004689 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 945556004690 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 945556004691 ATP binding site [chemical binding]; other site 945556004692 putative Mg++ binding site [ion binding]; other site 945556004693 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 945556004694 nucleotide binding region [chemical binding]; other site 945556004695 ATP-binding site [chemical binding]; other site 945556004696 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 945556004697 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 945556004698 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 945556004699 cyclase homology domain; Region: CHD; cd07302 945556004700 nucleotidyl binding site; other site 945556004701 metal binding site [ion binding]; metal-binding site 945556004702 dimer interface [polypeptide binding]; other site 945556004703 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 945556004704 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 945556004705 catalytic loop [active] 945556004706 iron binding site [ion binding]; other site 945556004707 chaperone protein HscA; Provisional; Region: hscA; PRK05183 945556004708 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 945556004709 nucleotide binding site [chemical binding]; other site 945556004710 putative NEF/HSP70 interaction site [polypeptide binding]; other site 945556004711 SBD interface [polypeptide binding]; other site 945556004712 co-chaperone HscB; Provisional; Region: hscB; PRK05014 945556004713 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 945556004714 HSP70 interaction site [polypeptide binding]; other site 945556004715 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 945556004716 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 945556004717 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 945556004718 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 945556004719 trimerization site [polypeptide binding]; other site 945556004720 active site 945556004721 cysteine desulfurase; Provisional; Region: PRK14012 945556004722 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 945556004723 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 945556004724 catalytic residue [active] 945556004725 Transcriptional regulator; Region: Rrf2; cl17282 945556004726 Rrf2 family protein; Region: rrf2_super; TIGR00738 945556004727 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 945556004728 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 945556004729 IHF dimer interface [polypeptide binding]; other site 945556004730 IHF - DNA interface [nucleotide binding]; other site 945556004731 periplasmic folding chaperone; Provisional; Region: PRK10788 945556004732 SurA N-terminal domain; Region: SurA_N_3; cl07813 945556004733 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 945556004734 Cupin; Region: Cupin_6; pfam12852 945556004735 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 945556004736 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 945556004737 Fatty acid desaturase; Region: FA_desaturase; pfam00487 945556004738 Di-iron ligands [ion binding]; other site 945556004739 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 945556004740 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556004741 active site 945556004742 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 945556004743 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556004744 active site 945556004745 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 945556004746 ABC1 family; Region: ABC1; cl17513 945556004747 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 945556004748 putative deacylase active site [active] 945556004749 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 945556004750 IucA / IucC family; Region: IucA_IucC; pfam04183 945556004751 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 945556004752 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 945556004753 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 945556004754 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 945556004755 Major Facilitator Superfamily; Region: MFS_1; pfam07690 945556004756 putative substrate translocation pore; other site 945556004757 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 945556004758 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 945556004759 IucA / IucC family; Region: IucA_IucC; pfam04183 945556004760 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 945556004761 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 945556004762 IucA / IucC family; Region: IucA_IucC; pfam04183 945556004763 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 945556004764 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 945556004765 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 945556004766 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 945556004767 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 945556004768 N-terminal plug; other site 945556004769 ligand-binding site [chemical binding]; other site 945556004770 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 945556004771 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 945556004772 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 945556004773 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 945556004774 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 945556004775 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 945556004776 motif II; other site 945556004777 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 945556004778 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 945556004779 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 945556004780 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 945556004781 homotrimer interface [polypeptide binding]; other site 945556004782 Walker A motif; other site 945556004783 GTP binding site [chemical binding]; other site 945556004784 Walker B motif; other site 945556004785 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 945556004786 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 945556004787 putative dimer interface [polypeptide binding]; other site 945556004788 active site pocket [active] 945556004789 putative cataytic base [active] 945556004790 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 945556004791 catalytic core [active] 945556004792 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 945556004793 cobalamin synthase; Reviewed; Region: cobS; PRK00235 945556004794 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 945556004795 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 945556004796 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 945556004797 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 945556004798 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 945556004799 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 945556004800 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 945556004801 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 945556004802 N-terminal plug; other site 945556004803 ligand-binding site [chemical binding]; other site 945556004804 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 945556004805 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 945556004806 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556004807 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556004808 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 945556004809 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 945556004810 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 945556004811 HlyD family secretion protein; Region: HlyD_3; pfam13437 945556004812 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 945556004813 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 945556004814 Walker A/P-loop; other site 945556004815 ATP binding site [chemical binding]; other site 945556004816 Q-loop/lid; other site 945556004817 ABC transporter signature motif; other site 945556004818 Walker B; other site 945556004819 D-loop; other site 945556004820 H-loop/switch region; other site 945556004821 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 945556004822 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 945556004823 Walker A/P-loop; other site 945556004824 ATP binding site [chemical binding]; other site 945556004825 Q-loop/lid; other site 945556004826 ABC transporter signature motif; other site 945556004827 Walker B; other site 945556004828 D-loop; other site 945556004829 H-loop/switch region; other site 945556004830 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 945556004831 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 945556004832 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 945556004833 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 945556004834 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 945556004835 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 945556004836 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 945556004837 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 945556004838 eyelet of channel; other site 945556004839 trimer interface [polypeptide binding]; other site 945556004840 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 945556004841 HIT family signature motif; other site 945556004842 catalytic residue [active] 945556004843 TonB C terminal; Region: TonB_2; pfam13103 945556004844 Methyltransferase domain; Region: Methyltransf_23; pfam13489 945556004845 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 945556004846 S-adenosylmethionine binding site [chemical binding]; other site 945556004847 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 945556004848 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 945556004849 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 945556004850 homodimer interface [polypeptide binding]; other site 945556004851 substrate-cofactor binding pocket; other site 945556004852 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556004853 catalytic residue [active] 945556004854 hypothetical protein; Validated; Region: PRK00153 945556004855 recombination protein RecR; Reviewed; Region: recR; PRK00076 945556004856 RecR protein; Region: RecR; pfam02132 945556004857 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 945556004858 putative active site [active] 945556004859 putative metal-binding site [ion binding]; other site 945556004860 tetramer interface [polypeptide binding]; other site 945556004861 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 945556004862 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 945556004863 catalytic site [active] 945556004864 putative active site [active] 945556004865 putative substrate binding site [chemical binding]; other site 945556004866 HRDC domain; Region: HRDC; pfam00570 945556004867 YcgL domain; Region: YcgL; pfam05166 945556004868 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 945556004869 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 945556004870 Walker A motif; other site 945556004871 ATP binding site [chemical binding]; other site 945556004872 Walker B motif; other site 945556004873 arginine finger; other site 945556004874 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 945556004875 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 945556004876 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 945556004877 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556004878 catalytic residue [active] 945556004879 HemK family putative methylases; Region: hemK_fam; TIGR00536 945556004880 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 945556004881 S-adenosylmethionine binding site [chemical binding]; other site 945556004882 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 945556004883 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 945556004884 Tetramer interface [polypeptide binding]; other site 945556004885 active site 945556004886 FMN-binding site [chemical binding]; other site 945556004887 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 945556004888 metal binding site [ion binding]; metal-binding site 945556004889 active site 945556004890 I-site; other site 945556004891 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 945556004892 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 945556004893 lipoyl synthase; Provisional; Region: PRK12928 945556004894 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 945556004895 FeS/SAM binding site; other site 945556004896 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 945556004897 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 945556004898 tetramer interface [polypeptide binding]; other site 945556004899 TPP-binding site [chemical binding]; other site 945556004900 heterodimer interface [polypeptide binding]; other site 945556004901 phosphorylation loop region [posttranslational modification] 945556004902 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 945556004903 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 945556004904 alpha subunit interface [polypeptide binding]; other site 945556004905 TPP binding site [chemical binding]; other site 945556004906 heterodimer interface [polypeptide binding]; other site 945556004907 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 945556004908 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 945556004909 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 945556004910 E3 interaction surface; other site 945556004911 lipoyl attachment site [posttranslational modification]; other site 945556004912 e3 binding domain; Region: E3_binding; pfam02817 945556004913 e3 binding domain; Region: E3_binding; pfam02817 945556004914 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 945556004915 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 945556004916 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 945556004917 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 945556004918 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 945556004919 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 945556004920 acetoin reductases; Region: 23BDH; TIGR02415 945556004921 NAD binding site [chemical binding]; other site 945556004922 homotetramer interface [polypeptide binding]; other site 945556004923 homodimer interface [polypeptide binding]; other site 945556004924 active site 945556004925 substrate binding site [chemical binding]; other site 945556004926 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 945556004927 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 945556004928 putative NAD(P) binding site [chemical binding]; other site 945556004929 catalytic Zn binding site [ion binding]; other site 945556004930 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 945556004931 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 945556004932 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 945556004933 Walker A motif; other site 945556004934 ATP binding site [chemical binding]; other site 945556004935 Walker B motif; other site 945556004936 arginine finger; other site 945556004937 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 945556004938 Putative phosphatase (DUF442); Region: DUF442; cl17385 945556004939 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 945556004940 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 945556004941 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 945556004942 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 945556004943 EamA-like transporter family; Region: EamA; pfam00892 945556004944 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 945556004945 EamA-like transporter family; Region: EamA; pfam00892 945556004946 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556004947 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 945556004948 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556004949 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 945556004950 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 945556004951 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 945556004952 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 945556004953 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 945556004954 Chromate transporter; Region: Chromate_transp; pfam02417 945556004955 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 945556004956 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556004957 DNA-binding site [nucleotide binding]; DNA binding site 945556004958 UTRA domain; Region: UTRA; pfam07702 945556004959 putative oxidoreductase; Provisional; Region: PRK08275 945556004960 L-aspartate oxidase; Provisional; Region: PRK06175 945556004961 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 945556004962 Ferredoxin [Energy production and conversion]; Region: COG1146 945556004963 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 945556004964 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 945556004965 substrate binding pocket [chemical binding]; other site 945556004966 membrane-bound complex binding site; other site 945556004967 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 945556004968 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556004969 dimer interface [polypeptide binding]; other site 945556004970 conserved gate region; other site 945556004971 putative PBP binding loops; other site 945556004972 ABC-ATPase subunit interface; other site 945556004973 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 945556004974 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 945556004975 Walker A/P-loop; other site 945556004976 ATP binding site [chemical binding]; other site 945556004977 Q-loop/lid; other site 945556004978 ABC transporter signature motif; other site 945556004979 Walker B; other site 945556004980 D-loop; other site 945556004981 H-loop/switch region; other site 945556004982 HEAT repeats; Region: HEAT_2; pfam13646 945556004983 HEAT repeats; Region: HEAT_2; pfam13646 945556004984 HEAT repeats; Region: HEAT_2; pfam13646 945556004985 HEAT repeats; Region: HEAT_2; pfam13646 945556004986 Protein of unknown function (DUF971); Region: DUF971; pfam06155 945556004987 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 945556004988 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 945556004989 putative substrate translocation pore; other site 945556004990 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 945556004991 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 945556004992 N-terminal plug; other site 945556004993 ligand-binding site [chemical binding]; other site 945556004994 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 945556004995 Aspartase; Region: Aspartase; cd01357 945556004996 active sites [active] 945556004997 tetramer interface [polypeptide binding]; other site 945556004998 cell density-dependent motility repressor; Provisional; Region: PRK10082 945556004999 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556005000 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 945556005001 dimerization interface [polypeptide binding]; other site 945556005002 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556005003 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556005004 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 945556005005 substrate binding pocket [chemical binding]; other site 945556005006 dimerization interface [polypeptide binding]; other site 945556005007 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 945556005008 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 945556005009 dimer interface [polypeptide binding]; other site 945556005010 active site 945556005011 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 945556005012 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 945556005013 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 945556005014 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556005015 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556005016 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 945556005017 putative dimerization interface [polypeptide binding]; other site 945556005018 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 945556005019 fructuronate transporter; Provisional; Region: PRK10034; cl15264 945556005020 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 945556005021 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556005022 NAD(P) binding site [chemical binding]; other site 945556005023 active site 945556005024 Helix-turn-helix domain; Region: HTH_18; pfam12833 945556005025 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556005026 benzoate transport; Region: 2A0115; TIGR00895 945556005027 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 945556005028 putative substrate translocation pore; other site 945556005029 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 945556005030 Dienelactone hydrolase family; Region: DLH; pfam01738 945556005031 SnoaL-like domain; Region: SnoaL_2; pfam12680 945556005032 short chain dehydrogenase; Provisional; Region: PRK08265 945556005033 classical (c) SDRs; Region: SDR_c; cd05233 945556005034 NAD(P) binding site [chemical binding]; other site 945556005035 active site 945556005036 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 945556005037 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 945556005038 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556005039 Helix-turn-helix domain; Region: HTH_18; pfam12833 945556005040 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556005041 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 945556005042 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 945556005043 catalytic loop [active] 945556005044 iron binding site [ion binding]; other site 945556005045 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 945556005046 FAD binding pocket [chemical binding]; other site 945556005047 FAD binding motif [chemical binding]; other site 945556005048 phosphate binding motif [ion binding]; other site 945556005049 beta-alpha-beta structure motif; other site 945556005050 NAD binding pocket [chemical binding]; other site 945556005051 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 945556005052 inter-subunit interface; other site 945556005053 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 945556005054 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 945556005055 [2Fe-2S] cluster binding site [ion binding]; other site 945556005056 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 945556005057 putative alpha subunit interface [polypeptide binding]; other site 945556005058 putative active site [active] 945556005059 putative substrate binding site [chemical binding]; other site 945556005060 Fe binding site [ion binding]; other site 945556005061 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 945556005062 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 945556005063 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 945556005064 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 945556005065 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556005066 dimer interface [polypeptide binding]; other site 945556005067 conserved gate region; other site 945556005068 putative PBP binding loops; other site 945556005069 ABC-ATPase subunit interface; other site 945556005070 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 945556005071 Walker A/P-loop; other site 945556005072 ATP binding site [chemical binding]; other site 945556005073 ABC transporter; Region: ABC_tran; pfam00005 945556005074 Q-loop/lid; other site 945556005075 ABC transporter signature motif; other site 945556005076 Walker B; other site 945556005077 D-loop; other site 945556005078 H-loop/switch region; other site 945556005079 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 945556005080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556005081 NAD(P) binding site [chemical binding]; other site 945556005082 active site 945556005083 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 945556005084 hydrophobic substrate binding pocket; other site 945556005085 Isochorismatase family; Region: Isochorismatase; pfam00857 945556005086 active site 945556005087 conserved cis-peptide bond; other site 945556005088 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 945556005089 metal binding site 2 [ion binding]; metal-binding site 945556005090 putative DNA binding helix; other site 945556005091 metal binding site 1 [ion binding]; metal-binding site 945556005092 dimer interface [polypeptide binding]; other site 945556005093 structural Zn2+ binding site [ion binding]; other site 945556005094 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 945556005095 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 945556005096 putative active site [active] 945556005097 putative metal binding site [ion binding]; other site 945556005098 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 945556005099 polyphosphate kinase; Provisional; Region: PRK05443 945556005100 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 945556005101 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 945556005102 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 945556005103 putative active site [active] 945556005104 catalytic site [active] 945556005105 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 945556005106 putative domain interface [polypeptide binding]; other site 945556005107 putative active site [active] 945556005108 catalytic site [active] 945556005109 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 945556005110 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 945556005111 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 945556005112 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 945556005113 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 945556005114 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 945556005115 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 945556005116 FeS/SAM binding site; other site 945556005117 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 945556005118 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 945556005119 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 945556005120 active site 945556005121 dimer interface [polypeptide binding]; other site 945556005122 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 945556005123 putative active site [active] 945556005124 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 945556005125 PLD-like domain; Region: PLDc_2; pfam13091 945556005126 putative active site [active] 945556005127 catalytic site [active] 945556005128 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 945556005129 PLD-like domain; Region: PLDc_2; pfam13091 945556005130 putative active site [active] 945556005131 catalytic site [active] 945556005132 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 945556005133 putative heme binding pocket [chemical binding]; other site 945556005134 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 945556005135 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 945556005136 substrate binding site [chemical binding]; other site 945556005137 catalytic Zn binding site [ion binding]; other site 945556005138 NAD binding site [chemical binding]; other site 945556005139 structural Zn binding site [ion binding]; other site 945556005140 dimer interface [polypeptide binding]; other site 945556005141 Fimbrial protein; Region: Fimbrial; cl01416 945556005142 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 945556005143 Walker A/P-loop; other site 945556005144 ATP binding site [chemical binding]; other site 945556005145 Q-loop/lid; other site 945556005146 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 945556005147 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 945556005148 AAA domain; Region: AAA_21; pfam13304 945556005149 Walker A/P-loop; other site 945556005150 ATP binding site [chemical binding]; other site 945556005151 Q-loop/lid; other site 945556005152 ABC transporter signature motif; other site 945556005153 Walker B; other site 945556005154 D-loop; other site 945556005155 H-loop/switch region; other site 945556005156 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 945556005157 Protein export membrane protein; Region: SecD_SecF; cl14618 945556005158 Protein export membrane protein; Region: SecD_SecF; cl14618 945556005159 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 945556005160 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 945556005161 HlyD family secretion protein; Region: HlyD_3; pfam13437 945556005162 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 945556005163 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 945556005164 active site 945556005165 phosphorylation site [posttranslational modification] 945556005166 intermolecular recognition site; other site 945556005167 dimerization interface [polypeptide binding]; other site 945556005168 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 945556005169 DNA binding site [nucleotide binding] 945556005170 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 945556005171 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 945556005172 dimerization interface [polypeptide binding]; other site 945556005173 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 945556005174 dimer interface [polypeptide binding]; other site 945556005175 phosphorylation site [posttranslational modification] 945556005176 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 945556005177 ATP binding site [chemical binding]; other site 945556005178 Mg2+ binding site [ion binding]; other site 945556005179 G-X-G motif; other site 945556005180 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 945556005181 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 945556005182 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 945556005183 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 945556005184 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 945556005185 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 945556005186 classical (c) SDRs; Region: SDR_c; cd05233 945556005187 NAD(P) binding site [chemical binding]; other site 945556005188 active site 945556005189 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 945556005190 classical (c) SDRs; Region: SDR_c; cd05233 945556005191 NAD(P) binding site [chemical binding]; other site 945556005192 active site 945556005193 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 945556005194 ATP binding site [chemical binding]; other site 945556005195 putative Mg++ binding site [ion binding]; other site 945556005196 helicase superfamily c-terminal domain; Region: HELICc; smart00490 945556005197 nucleotide binding region [chemical binding]; other site 945556005198 ATP-binding site [chemical binding]; other site 945556005199 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 945556005200 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 945556005201 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556005202 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556005203 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 945556005204 non-specific DNA binding site [nucleotide binding]; other site 945556005205 salt bridge; other site 945556005206 sequence-specific DNA binding site [nucleotide binding]; other site 945556005207 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 945556005208 HipA-like N-terminal domain; Region: HipA_N; pfam07805 945556005209 HipA-like C-terminal domain; Region: HipA_C; pfam07804 945556005210 HD domain; Region: HD_4; pfam13328 945556005211 Survival protein SurE; Region: SurE; pfam01975 945556005212 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 945556005213 GH3 auxin-responsive promoter; Region: GH3; pfam03321 945556005214 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 945556005215 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 945556005216 putative substrate translocation pore; other site 945556005217 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 945556005218 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 945556005219 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 945556005220 HlyD family secretion protein; Region: HlyD_3; pfam13437 945556005221 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 945556005222 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; cl00246 945556005223 FAD binding site [chemical binding]; other site 945556005224 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 945556005225 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 945556005226 nudix motif; other site 945556005227 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 945556005228 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 945556005229 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 945556005230 active site 945556005231 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 945556005232 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 945556005233 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 945556005234 active site 945556005235 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556005236 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556005237 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 945556005238 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 945556005239 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 945556005240 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 945556005241 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 945556005242 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 945556005243 Cupin domain; Region: Cupin_2; cl17218 945556005244 Helix-turn-helix domain; Region: HTH_18; pfam12833 945556005245 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 945556005246 Coenzyme A binding pocket [chemical binding]; other site 945556005247 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 945556005248 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 945556005249 Walker A/P-loop; other site 945556005250 ATP binding site [chemical binding]; other site 945556005251 Q-loop/lid; other site 945556005252 ABC transporter signature motif; other site 945556005253 Walker B; other site 945556005254 D-loop; other site 945556005255 H-loop/switch region; other site 945556005256 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 945556005257 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 945556005258 ABC-ATPase subunit interface; other site 945556005259 dimer interface [polypeptide binding]; other site 945556005260 putative PBP binding regions; other site 945556005261 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 945556005262 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 945556005263 intersubunit interface [polypeptide binding]; other site 945556005264 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 945556005265 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 945556005266 putative NAD(P) binding site [chemical binding]; other site 945556005267 putative substrate binding site [chemical binding]; other site 945556005268 catalytic Zn binding site [ion binding]; other site 945556005269 structural Zn binding site [ion binding]; other site 945556005270 dimer interface [polypeptide binding]; other site 945556005271 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 945556005272 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 945556005273 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556005274 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556005275 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 945556005276 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 945556005277 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 945556005278 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 945556005279 putative substrate translocation pore; other site 945556005280 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 945556005281 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 945556005282 putative NAD(P) binding site [chemical binding]; other site 945556005283 active site 945556005284 putative substrate binding site [chemical binding]; other site 945556005285 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556005286 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556005287 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 945556005288 putative dimerization interface [polypeptide binding]; other site 945556005289 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 945556005290 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 945556005291 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 945556005292 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 945556005293 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 945556005294 dimer interface [polypeptide binding]; other site 945556005295 NADP binding site [chemical binding]; other site 945556005296 catalytic residues [active] 945556005297 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556005298 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556005299 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 945556005300 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 945556005301 putative substrate translocation pore; other site 945556005302 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 945556005303 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 945556005304 HlyD family secretion protein; Region: HlyD_3; pfam13437 945556005305 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 945556005306 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 945556005307 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556005308 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556005309 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 945556005310 putative effector binding pocket; other site 945556005311 dimerization interface [polypeptide binding]; other site 945556005312 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 945556005313 putative substrate translocation pore; other site 945556005314 Major Facilitator Superfamily; Region: MFS_1; pfam07690 945556005315 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 945556005316 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 945556005317 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 945556005318 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556005319 DNA-binding site [nucleotide binding]; DNA binding site 945556005320 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 945556005321 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 945556005322 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 945556005323 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 945556005324 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 945556005325 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 945556005326 active site 945556005327 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 945556005328 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 945556005329 putative substrate translocation pore; other site 945556005330 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 945556005331 Domain of Unknown Function (DUF1548); Region: DUF1548; pfam07579 945556005332 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556005333 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556005334 bile acid transporter; Region: bass; TIGR00841 945556005335 Sodium Bile acid symporter family; Region: SBF; pfam01758 945556005336 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 945556005337 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 945556005338 acyl-activating enzyme (AAE) consensus motif; other site 945556005339 putative AMP binding site [chemical binding]; other site 945556005340 putative active site [active] 945556005341 putative CoA binding site [chemical binding]; other site 945556005342 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 945556005343 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 945556005344 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556005345 active site 945556005346 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 945556005347 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 945556005348 putative active site [active] 945556005349 putative catalytic site [active] 945556005350 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 945556005351 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 945556005352 NAD binding site [chemical binding]; other site 945556005353 homodimer interface [polypeptide binding]; other site 945556005354 active site 945556005355 short chain dehydrogenase; Provisional; Region: PRK06172 945556005356 classical (c) SDRs; Region: SDR_c; cd05233 945556005357 NAD(P) binding site [chemical binding]; other site 945556005358 active site 945556005359 short chain dehydrogenase; Provisional; Region: PRK07035 945556005360 classical (c) SDRs; Region: SDR_c; cd05233 945556005361 NAD(P) binding site [chemical binding]; other site 945556005362 active site 945556005363 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556005364 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556005365 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 945556005366 substrate binding pocket [chemical binding]; other site 945556005367 dimerization interface [polypeptide binding]; other site 945556005368 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556005369 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556005370 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 945556005371 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 945556005372 Predicted transcriptional regulator [Transcription]; Region: COG1959 945556005373 Transcriptional regulator; Region: Rrf2; pfam02082 945556005374 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 945556005375 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 945556005376 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 945556005377 potential catalytic triad [active] 945556005378 conserved cys residue [active] 945556005379 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 945556005380 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 945556005381 DNA binding residues [nucleotide binding] 945556005382 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 945556005383 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 945556005384 potential catalytic triad [active] 945556005385 conserved cys residue [active] 945556005386 Uncharacterized conserved protein [Function unknown]; Region: COG3268 945556005387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556005388 NAD(P) binding site [chemical binding]; other site 945556005389 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 945556005390 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 945556005391 putative active site [active] 945556005392 putative FMN binding site [chemical binding]; other site 945556005393 putative substrate binding site [chemical binding]; other site 945556005394 putative catalytic residue [active] 945556005395 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 945556005396 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 945556005397 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 945556005398 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 945556005399 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 945556005400 dimer interface [polypeptide binding]; other site 945556005401 NADP binding site [chemical binding]; other site 945556005402 catalytic residues [active] 945556005403 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 945556005404 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 945556005405 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 945556005406 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 945556005407 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 945556005408 dihydroxy-acid dehydratase; Validated; Region: PRK06131 945556005409 Transcriptional regulators [Transcription]; Region: FadR; COG2186 945556005410 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556005411 DNA-binding site [nucleotide binding]; DNA binding site 945556005412 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 945556005413 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; pfam09694 945556005414 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 945556005415 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556005416 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 945556005417 dimerization interface [polypeptide binding]; other site 945556005418 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 945556005419 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 945556005420 octamer interface [polypeptide binding]; other site 945556005421 active site 945556005422 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 945556005423 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 945556005424 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 945556005425 dimer interface [polypeptide binding]; other site 945556005426 active site 945556005427 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 945556005428 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 945556005429 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 945556005430 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 945556005431 dimer interface [polypeptide binding]; other site 945556005432 active site 945556005433 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 945556005434 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 945556005435 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 945556005436 active site 945556005437 Escherichia coli NAD+-dependent phenylacetaldehyde dehydrogenase PadA-like; Region: ALDH_PADH_NahF; cd07113 945556005438 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 945556005439 NAD(P) binding site [chemical binding]; other site 945556005440 catalytic residues [active] 945556005441 tyramine oxidase; Provisional; Region: tynA; PRK14696 945556005442 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 945556005443 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 945556005444 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 945556005445 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 945556005446 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556005447 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 945556005448 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 945556005449 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 945556005450 FMN-binding pocket [chemical binding]; other site 945556005451 flavin binding motif; other site 945556005452 phosphate binding motif [ion binding]; other site 945556005453 beta-alpha-beta structure motif; other site 945556005454 NAD binding pocket [chemical binding]; other site 945556005455 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 945556005456 catalytic loop [active] 945556005457 iron binding site [ion binding]; other site 945556005458 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 945556005459 classical (c) SDRs; Region: SDR_c; cd05233 945556005460 NAD(P) binding site [chemical binding]; other site 945556005461 active site 945556005462 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 945556005463 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 945556005464 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 945556005465 [2Fe-2S] cluster binding site [ion binding]; other site 945556005466 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 945556005467 putative alpha subunit interface [polypeptide binding]; other site 945556005468 putative active site [active] 945556005469 putative substrate binding site [chemical binding]; other site 945556005470 Fe binding site [ion binding]; other site 945556005471 SnoaL-like domain; Region: SnoaL_4; pfam13577 945556005472 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 945556005473 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556005474 active site 945556005475 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 945556005476 Amidase; Region: Amidase; cl11426 945556005477 Transcriptional regulators [Transcription]; Region: MarR; COG1846 945556005478 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 945556005479 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 945556005480 Major Facilitator Superfamily; Region: MFS_1; pfam07690 945556005481 putative substrate translocation pore; other site 945556005482 outer membrane porin, OprD family; Region: OprD; pfam03573 945556005483 short chain dehydrogenase; Provisional; Region: PRK08251 945556005484 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556005485 NAD(P) binding site [chemical binding]; other site 945556005486 active site 945556005487 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 945556005488 catalytic core [active] 945556005489 thiamine kinase; Region: ycfN_thiK; TIGR02721 945556005490 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 945556005491 putative active site [active] 945556005492 putative substrate binding site [chemical binding]; other site 945556005493 ATP binding site [chemical binding]; other site 945556005494 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 945556005495 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556005496 active site 945556005497 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556005498 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556005499 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 945556005500 substrate binding pocket [chemical binding]; other site 945556005501 dimerization interface [polypeptide binding]; other site 945556005502 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 945556005503 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 945556005504 Bacterial transcriptional regulator; Region: IclR; pfam01614 945556005505 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 945556005506 Predicted transporter component [General function prediction only]; Region: COG2391 945556005507 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 945556005508 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 945556005509 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 945556005510 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 945556005511 Trp docking motif [polypeptide binding]; other site 945556005512 putative active site [active] 945556005513 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 945556005514 Right handed beta helix region; Region: Beta_helix; pfam13229 945556005515 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 945556005516 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 945556005517 active site 945556005518 catalytic residue [active] 945556005519 dimer interface [polypeptide binding]; other site 945556005520 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 945556005521 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 945556005522 heterodimer interface [polypeptide binding]; other site 945556005523 active site 945556005524 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 945556005525 heterodimer interface [polypeptide binding]; other site 945556005526 multimer interface [polypeptide binding]; other site 945556005527 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 945556005528 active site 945556005529 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 945556005530 benzoate transport; Region: 2A0115; TIGR00895 945556005531 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 945556005532 putative substrate translocation pore; other site 945556005533 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 945556005534 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 945556005535 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 945556005536 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 945556005537 tetramer interface [polypeptide binding]; other site 945556005538 active site 945556005539 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 945556005540 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 945556005541 dimer interface [polypeptide binding]; other site 945556005542 active site 945556005543 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 945556005544 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 945556005545 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 945556005546 substrate binding site; other site 945556005547 dimer interface; other site 945556005548 Septum formation initiator; Region: DivIC; cl17659 945556005549 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 945556005550 Predicted membrane protein [Function unknown]; Region: COG2323 945556005551 enolase; Provisional; Region: eno; PRK00077 945556005552 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 945556005553 dimer interface [polypeptide binding]; other site 945556005554 metal binding site [ion binding]; metal-binding site 945556005555 substrate binding pocket [chemical binding]; other site 945556005556 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 945556005557 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 945556005558 CTP synthetase; Validated; Region: pyrG; PRK05380 945556005559 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 945556005560 Catalytic site [active] 945556005561 active site 945556005562 UTP binding site [chemical binding]; other site 945556005563 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 945556005564 active site 945556005565 putative oxyanion hole; other site 945556005566 catalytic triad [active] 945556005567 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 945556005568 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 945556005569 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 945556005570 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 945556005571 active site 945556005572 catalytic triad [active] 945556005573 oxyanion hole [active] 945556005574 SnoaL-like domain; Region: SnoaL_2; pfam12680 945556005575 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 945556005576 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 945556005577 active site 945556005578 FMN binding site [chemical binding]; other site 945556005579 2,4-decadienoyl-CoA binding site; other site 945556005580 catalytic residue [active] 945556005581 4Fe-4S cluster binding site [ion binding]; other site 945556005582 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 945556005583 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 945556005584 Predicted transcriptional regulators [Transcription]; Region: COG1695 945556005585 Transcriptional regulator PadR-like family; Region: PadR; cl17335 945556005586 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 945556005587 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 945556005588 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 945556005589 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 945556005590 hypothetical protein; Provisional; Region: PRK02237 945556005591 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 945556005592 Clp amino terminal domain; Region: Clp_N; pfam02861 945556005593 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 945556005594 Walker A motif; other site 945556005595 ATP binding site [chemical binding]; other site 945556005596 Walker B motif; other site 945556005597 arginine finger; other site 945556005598 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 945556005599 Walker A motif; other site 945556005600 ATP binding site [chemical binding]; other site 945556005601 Walker B motif; other site 945556005602 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 945556005603 Uncharacterized conserved protein [Function unknown]; Region: COG2127 945556005604 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 945556005605 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 945556005606 Protein of unknown function DUF45; Region: DUF45; pfam01863 945556005607 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 945556005608 tetramer (dimer of dimers) interface [polypeptide binding]; other site 945556005609 active site 945556005610 dimer interface [polypeptide binding]; other site 945556005611 threonine dehydratase; Reviewed; Region: PRK09224 945556005612 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 945556005613 tetramer interface [polypeptide binding]; other site 945556005614 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556005615 catalytic residue [active] 945556005616 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 945556005617 putative Ile/Val binding site [chemical binding]; other site 945556005618 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 945556005619 putative Ile/Val binding site [chemical binding]; other site 945556005620 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 945556005621 TrkA-N domain; Region: TrkA_N; pfam02254 945556005622 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 945556005623 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 945556005624 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 945556005625 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 945556005626 dimerization interface [polypeptide binding]; other site 945556005627 substrate binding site [chemical binding]; other site 945556005628 active site 945556005629 calcium binding site [ion binding]; other site 945556005630 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 945556005631 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 945556005632 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 945556005633 Peptidase M16C associated; Region: M16C_assoc; pfam08367 945556005634 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 945556005635 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 945556005636 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 945556005637 N-terminal plug; other site 945556005638 ligand-binding site [chemical binding]; other site 945556005639 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 945556005640 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 945556005641 substrate binding site [chemical binding]; other site 945556005642 ATP binding site [chemical binding]; other site 945556005643 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 945556005644 iron-sulfur cluster [ion binding]; other site 945556005645 [2Fe-2S] cluster binding site [ion binding]; other site 945556005646 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 945556005647 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 945556005648 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 945556005649 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 945556005650 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; pfam09600 945556005651 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 945556005652 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 945556005653 dimer interface [polypeptide binding]; other site 945556005654 FMN binding site [chemical binding]; other site 945556005655 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 945556005656 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 945556005657 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 945556005658 P loop; other site 945556005659 GTP binding site [chemical binding]; other site 945556005660 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 945556005661 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_10; cd04623 945556005662 FOG: CBS domain [General function prediction only]; Region: COG0517 945556005663 acetylornithine aminotransferase; Provisional; Region: PRK02627 945556005664 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 945556005665 inhibitor-cofactor binding pocket; inhibition site 945556005666 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556005667 catalytic residue [active] 945556005668 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 945556005669 putative GSH binding site [chemical binding]; other site 945556005670 catalytic residues [active] 945556005671 replication factor-a protein 1 (rpa1); Region: rpa1; TIGR00617 945556005672 LysR family transcriptional regulator; Provisional; Region: PRK14997 945556005673 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556005674 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 945556005675 putative effector binding pocket; other site 945556005676 putative dimerization interface [polypeptide binding]; other site 945556005677 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 945556005678 active site 945556005679 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 945556005680 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 945556005681 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 945556005682 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 945556005683 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 945556005684 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 945556005685 active site 945556005686 phosphorylation site [posttranslational modification] 945556005687 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; cl00163 945556005688 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 945556005689 dimerization domain swap beta strand [polypeptide binding]; other site 945556005690 regulatory protein interface [polypeptide binding]; other site 945556005691 active site 945556005692 regulatory phosphorylation site [posttranslational modification]; other site 945556005693 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 945556005694 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 945556005695 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 945556005696 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 945556005697 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 945556005698 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 945556005699 putative substrate binding site [chemical binding]; other site 945556005700 putative ATP binding site [chemical binding]; other site 945556005701 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 945556005702 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 945556005703 active site 945556005704 P-loop; other site 945556005705 phosphorylation site [posttranslational modification] 945556005706 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 945556005707 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 945556005708 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 945556005709 putative DNA binding site [nucleotide binding]; other site 945556005710 putative Zn2+ binding site [ion binding]; other site 945556005711 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 945556005712 PAS domain; Region: PAS_9; pfam13426 945556005713 putative active site [active] 945556005714 heme pocket [chemical binding]; other site 945556005715 PAS fold; Region: PAS_4; pfam08448 945556005716 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 945556005717 putative active site [active] 945556005718 heme pocket [chemical binding]; other site 945556005719 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 945556005720 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 945556005721 metal binding site [ion binding]; metal-binding site 945556005722 active site 945556005723 I-site; other site 945556005724 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 945556005725 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 945556005726 Ligand Binding Site [chemical binding]; other site 945556005727 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 945556005728 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 945556005729 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 945556005730 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 945556005731 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 945556005732 Sulfate transporter family; Region: Sulfate_transp; pfam00916 945556005733 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 945556005734 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 945556005735 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 945556005736 Peptidase S8 family domain in ProteinaseK-like proteins; Region: Peptidases_S8_PCSK9_ProteinaseK_like; cd04077 945556005737 calcium binding site 2 [ion binding]; other site 945556005738 active site 945556005739 catalytic triad [active] 945556005740 calcium binding site 1 [ion binding]; other site 945556005741 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 945556005742 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 945556005743 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 945556005744 kynureninase; Region: kynureninase; TIGR01814 945556005745 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 945556005746 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 945556005747 catalytic residue [active] 945556005748 catalytic residue [active] 945556005749 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 945556005750 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 945556005751 putative DNA binding site [nucleotide binding]; other site 945556005752 putative Zn2+ binding site [ion binding]; other site 945556005753 AsnC family; Region: AsnC_trans_reg; pfam01037 945556005754 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 945556005755 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 945556005756 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 945556005757 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 945556005758 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 945556005759 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 945556005760 motif II; other site 945556005761 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 945556005762 RNA binding surface [nucleotide binding]; other site 945556005763 recombinase A; Provisional; Region: recA; PRK09354 945556005764 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 945556005765 hexamer interface [polypeptide binding]; other site 945556005766 Walker A motif; other site 945556005767 ATP binding site [chemical binding]; other site 945556005768 Walker B motif; other site 945556005769 recombination regulator RecX; Reviewed; Region: recX; PRK00117 945556005770 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 945556005771 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 945556005772 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 945556005773 active site 945556005774 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 945556005775 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 945556005776 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 945556005777 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 945556005778 trimer interface [polypeptide binding]; other site 945556005779 active site 945556005780 UDP-GlcNAc binding site [chemical binding]; other site 945556005781 lipid binding site [chemical binding]; lipid-binding site 945556005782 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 945556005783 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 945556005784 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 945556005785 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 945556005786 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 945556005787 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 945556005788 Surface antigen; Region: Bac_surface_Ag; pfam01103 945556005789 zinc metallopeptidase RseP; Provisional; Region: PRK10779 945556005790 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 945556005791 active site 945556005792 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 945556005793 protein binding site [polypeptide binding]; other site 945556005794 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 945556005795 protein binding site [polypeptide binding]; other site 945556005796 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 945556005797 putative substrate binding region [chemical binding]; other site 945556005798 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 945556005799 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 945556005800 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 945556005801 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 945556005802 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 945556005803 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 945556005804 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 945556005805 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 945556005806 catalytic residue [active] 945556005807 putative FPP diphosphate binding site; other site 945556005808 putative FPP binding hydrophobic cleft; other site 945556005809 dimer interface [polypeptide binding]; other site 945556005810 putative IPP diphosphate binding site; other site 945556005811 ribosome recycling factor; Reviewed; Region: frr; PRK00083 945556005812 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 945556005813 hinge region; other site 945556005814 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 945556005815 putative nucleotide binding site [chemical binding]; other site 945556005816 uridine monophosphate binding site [chemical binding]; other site 945556005817 homohexameric interface [polypeptide binding]; other site 945556005818 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 945556005819 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 945556005820 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 945556005821 FeS/SAM binding site; other site 945556005822 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 945556005823 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 945556005824 putative active site [active] 945556005825 heme pocket [chemical binding]; other site 945556005826 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 945556005827 dimer interface [polypeptide binding]; other site 945556005828 phosphorylation site [posttranslational modification] 945556005829 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 945556005830 ATP binding site [chemical binding]; other site 945556005831 Mg2+ binding site [ion binding]; other site 945556005832 G-X-G motif; other site 945556005833 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 945556005834 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 945556005835 active site 945556005836 phosphorylation site [posttranslational modification] 945556005837 intermolecular recognition site; other site 945556005838 dimerization interface [polypeptide binding]; other site 945556005839 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 945556005840 Walker A motif; other site 945556005841 ATP binding site [chemical binding]; other site 945556005842 Walker B motif; other site 945556005843 arginine finger; other site 945556005844 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 945556005845 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556005846 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556005847 ornithine carbamoyltransferase; Provisional; Region: PRK00779 945556005848 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 945556005849 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 945556005850 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 945556005851 catalytic residues [active] 945556005852 active site 945556005853 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 945556005854 homotrimer interaction site [polypeptide binding]; other site 945556005855 zinc binding site [ion binding]; other site 945556005856 CDP-binding sites; other site 945556005857 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 945556005858 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 945556005859 hydroxyglutarate oxidase; Provisional; Region: PRK11728 945556005860 fumarate hydratase; Reviewed; Region: fumC; PRK00485 945556005861 Class II fumarases; Region: Fumarase_classII; cd01362 945556005862 active site 945556005863 tetramer interface [polypeptide binding]; other site 945556005864 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 945556005865 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556005866 NAD(P) binding site [chemical binding]; other site 945556005867 active site 945556005868 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 945556005869 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 945556005870 DsrC like protein; Region: DsrC; pfam04358 945556005871 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 945556005872 EamA-like transporter family; Region: EamA; pfam00892 945556005873 EamA-like transporter family; Region: EamA; pfam00892 945556005874 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556005875 DNA-binding site [nucleotide binding]; DNA binding site 945556005876 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 945556005877 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 945556005878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556005879 homodimer interface [polypeptide binding]; other site 945556005880 catalytic residue [active] 945556005881 Predicted transcriptional regulators [Transcription]; Region: COG1733 945556005882 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 945556005883 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 945556005884 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 945556005885 dimer interface [polypeptide binding]; other site 945556005886 putative functional site; other site 945556005887 putative MPT binding site; other site 945556005888 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 945556005889 MoaC family. 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 derivative to the precursor...; Region: MoaC; cl00242 945556005890 trimer interface [polypeptide binding]; other site 945556005891 dimer interface [polypeptide binding]; other site 945556005892 putative active site [active] 945556005893 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 945556005894 MPT binding site; other site 945556005895 trimer interface [polypeptide binding]; other site 945556005896 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 945556005897 MoaE homodimer interface [polypeptide binding]; other site 945556005898 MoaD interaction [polypeptide binding]; other site 945556005899 active site residues [active] 945556005900 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 945556005901 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 945556005902 FeS/SAM binding site; other site 945556005903 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 945556005904 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 945556005905 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 945556005906 molybdopterin cofactor binding site; other site 945556005907 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 945556005908 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 945556005909 putative molybdopterin cofactor binding site; other site 945556005910 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 945556005911 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 945556005912 GTP binding site; other site 945556005913 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 945556005914 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 945556005915 [4Fe-4S] binding site [ion binding]; other site 945556005916 molybdopterin cofactor binding site; other site 945556005917 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 945556005918 molybdopterin cofactor binding site; other site 945556005919 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 945556005920 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 945556005921 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 945556005922 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 945556005923 nitrite reductase subunit NirD; Provisional; Region: PRK14989 945556005924 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 945556005925 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 945556005926 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 945556005927 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 945556005928 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 945556005929 active site 945556005930 phosphorylation site [posttranslational modification] 945556005931 intermolecular recognition site; other site 945556005932 dimerization interface [polypeptide binding]; other site 945556005933 ANTAR domain; Region: ANTAR; pfam03861 945556005934 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 945556005935 NMT1-like family; Region: NMT1_2; pfam13379 945556005936 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 945556005937 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 945556005938 active site 945556005939 DNA binding site [nucleotide binding] 945556005940 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 945556005941 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 945556005942 Dehydroquinase class II; Region: DHquinase_II; pfam01220 945556005943 trimer interface [polypeptide binding]; other site 945556005944 active site 945556005945 dimer interface [polypeptide binding]; other site 945556005946 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 945556005947 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 945556005948 carboxyltransferase (CT) interaction site; other site 945556005949 biotinylation site [posttranslational modification]; other site 945556005950 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 945556005951 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 945556005952 ATP-grasp domain; Region: ATP-grasp_4; cl17255 945556005953 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 945556005954 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 945556005955 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 945556005956 putative substrate translocation pore; other site 945556005957 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556005958 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556005959 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 945556005960 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 945556005961 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 945556005962 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 945556005963 active site 945556005964 FMN binding site [chemical binding]; other site 945556005965 substrate binding site [chemical binding]; other site 945556005966 3Fe-4S cluster binding site [ion binding]; other site 945556005967 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 945556005968 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 945556005969 Uncharacterized conserved protein [Function unknown]; Region: COG1434 945556005970 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 945556005971 putative active site [active] 945556005972 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 945556005973 FAD binding domain; Region: FAD_binding_4; pfam01565 945556005974 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 945556005975 Low molecular weight phosphatase family; Region: LMWPc; cd00115 945556005976 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 945556005977 active site 945556005978 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 945556005979 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 945556005980 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 945556005981 putative active site [active] 945556005982 metal binding site [ion binding]; metal-binding site 945556005983 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 945556005984 active site 945556005985 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 945556005986 Phosphoesterase family; Region: Phosphoesterase; pfam04185 945556005987 Domain of unknown function (DUF756); Region: DUF756; pfam05506 945556005988 Domain of unknown function (DUF756); Region: DUF756; pfam05506 945556005989 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14960 945556005990 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 945556005991 Walker A motif; other site 945556005992 ATP binding site [chemical binding]; other site 945556005993 Walker B motif; other site 945556005994 arginine finger; other site 945556005995 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 945556005996 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 945556005997 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 945556005998 putative substrate translocation pore; other site 945556005999 TetR family transcriptional regulator; Provisional; Region: PRK14996 945556006000 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556006001 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 945556006002 Beta-lactamase; Region: Beta-lactamase; pfam00144 945556006003 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 945556006004 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 945556006005 active site 2 [active] 945556006006 active site 1 [active] 945556006007 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 945556006008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556006009 NAD(P) binding site [chemical binding]; other site 945556006010 active site 945556006011 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 945556006012 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 945556006013 dimer interface [polypeptide binding]; other site 945556006014 active site 945556006015 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 945556006016 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 945556006017 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556006018 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556006019 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 945556006020 dimerization interface [polypeptide binding]; other site 945556006021 transaldolase-like protein; Provisional; Region: PTZ00411 945556006022 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 945556006023 active site 945556006024 dimer interface [polypeptide binding]; other site 945556006025 catalytic residue [active] 945556006026 leucine export protein LeuE; Provisional; Region: PRK10958 945556006027 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 945556006028 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 945556006029 AsnC family; Region: AsnC_trans_reg; pfam01037 945556006030 Benzoate membrane transport protein; Region: BenE; pfam03594 945556006031 benzoate transporter; Region: benE; TIGR00843 945556006032 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 945556006033 MgtC family; Region: MgtC; pfam02308 945556006034 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 945556006035 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 945556006036 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 945556006037 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 945556006038 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 945556006039 RDD family; Region: RDD; pfam06271 945556006040 dipeptidase, putative; Region: dipeptidaselike; TIGR01887 945556006041 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 945556006042 Ligand Binding Site [chemical binding]; other site 945556006043 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 945556006044 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 945556006045 Walker A/P-loop; other site 945556006046 ATP binding site [chemical binding]; other site 945556006047 Q-loop/lid; other site 945556006048 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 945556006049 ABC transporter signature motif; other site 945556006050 Walker B; other site 945556006051 D-loop; other site 945556006052 ABC transporter; Region: ABC_tran_2; pfam12848 945556006053 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 945556006054 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 945556006055 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 945556006056 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 945556006057 N-terminal plug; other site 945556006058 ligand-binding site [chemical binding]; other site 945556006059 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 945556006060 Coenzyme A binding pocket [chemical binding]; other site 945556006061 synaptic vesicle protein SV2; Region: synapt_SV2; TIGR01299 945556006062 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 945556006063 Mechanosensitive ion channel; Region: MS_channel; pfam00924 945556006064 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 945556006065 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 945556006066 N-terminal plug; other site 945556006067 ligand-binding site [chemical binding]; other site 945556006068 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556006069 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556006070 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 945556006071 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 945556006072 putative DNA binding site [nucleotide binding]; other site 945556006073 putative Zn2+ binding site [ion binding]; other site 945556006074 AsnC family; Region: AsnC_trans_reg; pfam01037 945556006075 chorismate mutase; Provisional; Region: PRK08055 945556006076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556006077 active site 945556006078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556006079 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 945556006080 NAD(P) binding site [chemical binding]; other site 945556006081 active site 945556006082 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 945556006083 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 945556006084 C-terminal domain interface [polypeptide binding]; other site 945556006085 GSH binding site (G-site) [chemical binding]; other site 945556006086 dimer interface [polypeptide binding]; other site 945556006087 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 945556006088 N-terminal domain interface [polypeptide binding]; other site 945556006089 Spore Coat Protein U domain; Region: SCPU; pfam05229 945556006090 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 945556006091 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 945556006092 PapC C-terminal domain; Region: PapC_C; pfam13953 945556006093 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 945556006094 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 945556006095 Spore Coat Protein U domain; Region: SCPU; pfam05229 945556006096 aminopeptidase N; Provisional; Region: pepN; PRK14015 945556006097 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 945556006098 active site 945556006099 Zn binding site [ion binding]; other site 945556006100 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 945556006101 substrate binding site [chemical binding]; other site 945556006102 multimerization interface [polypeptide binding]; other site 945556006103 ATP binding site [chemical binding]; other site 945556006104 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 945556006105 putative substrate binding pocket [chemical binding]; other site 945556006106 trimer interface [polypeptide binding]; other site 945556006107 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 945556006108 PIF1-like helicase; Region: PIF1; pfam05970 945556006109 Walker A motif; other site 945556006110 ATP binding site [chemical binding]; other site 945556006111 Walker B motif; other site 945556006112 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 945556006113 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 945556006114 dimer interface [polypeptide binding]; other site 945556006115 active site 945556006116 metal binding site [ion binding]; metal-binding site 945556006117 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 945556006118 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 945556006119 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 945556006120 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 945556006121 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 945556006122 NAD(P) binding site [chemical binding]; other site 945556006123 catalytic residues [active] 945556006124 ethanolamine permease; Region: 2A0305; TIGR00908 945556006125 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 945556006126 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 945556006127 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 945556006128 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 945556006129 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 945556006130 catalytic triad [active] 945556006131 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 945556006132 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 945556006133 active site 945556006134 HIGH motif; other site 945556006135 nucleotide binding site [chemical binding]; other site 945556006136 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 945556006137 KMSKS motif; other site 945556006138 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 945556006139 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 945556006140 substrate binding site [chemical binding]; other site 945556006141 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 945556006142 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 945556006143 putative active site [active] 945556006144 putative metal binding site [ion binding]; other site 945556006145 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 945556006146 dimer interface [polypeptide binding]; other site 945556006147 FMN binding site [chemical binding]; other site 945556006148 EamA-like transporter family; Region: EamA; pfam00892 945556006149 bacterial Hfq-like; Region: Hfq; cd01716 945556006150 hexamer interface [polypeptide binding]; other site 945556006151 Sm1 motif; other site 945556006152 RNA binding site [nucleotide binding]; other site 945556006153 Sm2 motif; other site 945556006154 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 945556006155 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 945556006156 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 945556006157 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 945556006158 ATP binding site [chemical binding]; other site 945556006159 Mg2+ binding site [ion binding]; other site 945556006160 G-X-G motif; other site 945556006161 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 945556006162 ATP binding site [chemical binding]; other site 945556006163 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 945556006164 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 945556006165 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 945556006166 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 945556006167 probable active site [active] 945556006168 RelB antitoxin; Region: RelB; cl01171 945556006169 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 945556006170 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 945556006171 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 945556006172 RNA binding surface [nucleotide binding]; other site 945556006173 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 945556006174 active site 945556006175 uracil binding [chemical binding]; other site 945556006176 Protein of unknown function (DUF441); Region: DUF441; pfam04284 945556006177 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556006178 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556006179 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 945556006180 putative dimerization interface [polypeptide binding]; other site 945556006181 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 945556006182 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 945556006183 Major Facilitator Superfamily; Region: MFS_1; pfam07690 945556006184 putative substrate translocation pore; other site 945556006185 Ion transport protein; Region: Ion_trans; pfam00520 945556006186 Ion channel; Region: Ion_trans_2; pfam07885 945556006187 CCC1-related family of proteins; Region: CCC1_like; cl00278 945556006188 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 945556006189 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 945556006190 substrate binding site [chemical binding]; other site 945556006191 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 945556006192 substrate binding site [chemical binding]; other site 945556006193 ligand binding site [chemical binding]; other site 945556006194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 945556006195 Family of unknown function (DUF490); Region: DUF490; pfam04357 945556006196 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 945556006197 Surface antigen; Region: Bac_surface_Ag; pfam01103 945556006198 lysophospholipid transporter LplT; Provisional; Region: PRK11195 945556006199 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 945556006200 putative substrate translocation pore; other site 945556006201 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 945556006202 diiron binding motif [ion binding]; other site 945556006203 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 945556006204 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 945556006205 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 945556006206 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 945556006207 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 945556006208 active site 945556006209 phosphorylation site [posttranslational modification] 945556006210 intermolecular recognition site; other site 945556006211 dimerization interface [polypeptide binding]; other site 945556006212 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 945556006213 DNA binding site [nucleotide binding] 945556006214 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 945556006215 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 945556006216 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 945556006217 Ligand Binding Site [chemical binding]; other site 945556006218 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 945556006219 dimer interface [polypeptide binding]; other site 945556006220 phosphorylation site [posttranslational modification] 945556006221 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 945556006222 ATP binding site [chemical binding]; other site 945556006223 Mg2+ binding site [ion binding]; other site 945556006224 G-X-G motif; other site 945556006225 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 945556006226 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 945556006227 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 945556006228 Soluble P-type ATPase [General function prediction only]; Region: COG4087 945556006229 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 945556006230 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; cl00233 945556006231 catalytic center binding site [active] 945556006232 ATP binding site [chemical binding]; other site 945556006233 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 945556006234 homooctamer interface [polypeptide binding]; other site 945556006235 active site 945556006236 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 945556006237 ABC1 family; Region: ABC1; cl17513 945556006238 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 945556006239 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 945556006240 ATP binding site [chemical binding]; other site 945556006241 substrate interface [chemical binding]; other site 945556006242 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 945556006243 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 945556006244 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 945556006245 acyl-activating enzyme (AAE) consensus motif; other site 945556006246 AMP binding site [chemical binding]; other site 945556006247 active site 945556006248 CoA binding site [chemical binding]; other site 945556006249 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 945556006250 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556006251 active site 945556006252 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 945556006253 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 945556006254 NAD binding site [chemical binding]; other site 945556006255 homodimer interface [polypeptide binding]; other site 945556006256 homotetramer interface [polypeptide binding]; other site 945556006257 active site 945556006258 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 945556006259 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 945556006260 SurA N-terminal domain; Region: SurA_N; pfam09312 945556006261 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556006262 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 945556006263 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 945556006264 peptide chain release factor 1; Validated; Region: prfA; PRK00591 945556006265 This domain is found in peptide chain release factors; Region: PCRF; smart00937 945556006266 RF-1 domain; Region: RF-1; pfam00472 945556006267 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 945556006268 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 945556006269 potential catalytic triad [active] 945556006270 conserved cys residue [active] 945556006271 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556006272 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556006273 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 945556006274 putative effector binding pocket; other site 945556006275 dimerization interface [polypeptide binding]; other site 945556006276 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 945556006277 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 945556006278 PgaD-like protein; Region: PgaD; pfam13994 945556006279 N-glycosyltransferase; Provisional; Region: PRK11204 945556006280 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 945556006281 DXD motif; other site 945556006282 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 945556006283 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 945556006284 putative active site [active] 945556006285 putative metal binding site [ion binding]; other site 945556006286 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 945556006287 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 945556006288 binding surface 945556006289 TPR motif; other site 945556006290 PEP synthetase regulatory protein; Provisional; Region: PRK05339 945556006291 phosphoenolpyruvate synthase; Validated; Region: PRK06464 945556006292 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 945556006293 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 945556006294 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 945556006295 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 945556006296 RDD family; Region: RDD; pfam06271 945556006297 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 945556006298 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 945556006299 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 945556006300 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 945556006301 D-pathway; other site 945556006302 Putative ubiquinol binding site [chemical binding]; other site 945556006303 Low-spin heme (heme b) binding site [chemical binding]; other site 945556006304 Putative water exit pathway; other site 945556006305 Binuclear center (heme o3/CuB) [ion binding]; other site 945556006306 K-pathway; other site 945556006307 Putative proton exit pathway; other site 945556006308 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 945556006309 Subunit I/III interface [polypeptide binding]; other site 945556006310 Subunit III/IV interface [polypeptide binding]; other site 945556006311 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 945556006312 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 945556006313 UbiA prenyltransferase family; Region: UbiA; pfam01040 945556006314 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 945556006315 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 945556006316 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 945556006317 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 945556006318 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 945556006319 replicative DNA helicase; Region: DnaB; TIGR00665 945556006320 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 945556006321 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 945556006322 Walker A motif; other site 945556006323 ATP binding site [chemical binding]; other site 945556006324 Walker B motif; other site 945556006325 DNA binding loops [nucleotide binding] 945556006326 alanine racemase; Reviewed; Region: alr; PRK00053 945556006327 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 945556006328 active site 945556006329 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 945556006330 substrate binding site [chemical binding]; other site 945556006331 catalytic residues [active] 945556006332 dimer interface [polypeptide binding]; other site 945556006333 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 945556006334 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 945556006335 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 945556006336 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 945556006337 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 945556006338 Uncharacterized conserved protein [Function unknown]; Region: COG2308 945556006339 Predicted transcriptional regulator [Transcription]; Region: COG2378 945556006340 WYL domain; Region: WYL; pfam13280 945556006341 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 945556006342 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 945556006343 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 945556006344 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 945556006345 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 945556006346 S-adenosylmethionine binding site [chemical binding]; other site 945556006347 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 945556006348 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 945556006349 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 945556006350 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 945556006351 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 945556006352 purine monophosphate binding site [chemical binding]; other site 945556006353 dimer interface [polypeptide binding]; other site 945556006354 putative catalytic residues [active] 945556006355 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 945556006356 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 945556006357 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 945556006358 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 945556006359 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 945556006360 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 945556006361 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 945556006362 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 945556006363 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 945556006364 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 945556006365 Walker A/P-loop; other site 945556006366 ATP binding site [chemical binding]; other site 945556006367 Q-loop/lid; other site 945556006368 ABC transporter signature motif; other site 945556006369 Walker B; other site 945556006370 D-loop; other site 945556006371 H-loop/switch region; other site 945556006372 NIL domain; Region: NIL; pfam09383 945556006373 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556006374 dimer interface [polypeptide binding]; other site 945556006375 conserved gate region; other site 945556006376 ABC-ATPase subunit interface; other site 945556006377 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 945556006378 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 945556006379 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 945556006380 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556006381 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556006382 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 945556006383 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 945556006384 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 945556006385 Coenzyme A binding pocket [chemical binding]; other site 945556006386 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 945556006387 aromatic amino acid exporter; Provisional; Region: PRK11689 945556006388 EamA-like transporter family; Region: EamA; pfam00892 945556006389 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 945556006390 aspartate racemase; Region: asp_race; TIGR00035 945556006391 Protein of unknown function (DUF330); Region: DUF330; pfam03886 945556006392 mce related protein; Region: MCE; pfam02470 945556006393 mce related protein; Region: MCE; pfam02470 945556006394 mce related protein; Region: MCE; pfam02470 945556006395 Paraquat-inducible protein A; Region: PqiA; pfam04403 945556006396 Paraquat-inducible protein A; Region: PqiA; pfam04403 945556006397 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 945556006398 EamA-like transporter family; Region: EamA; pfam00892 945556006399 EamA-like transporter family; Region: EamA; pfam00892 945556006400 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556006401 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556006402 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 945556006403 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 945556006404 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 945556006405 Zn2+ binding site [ion binding]; other site 945556006406 Mg2+ binding site [ion binding]; other site 945556006407 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 945556006408 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_14; cd04672 945556006409 nudix motif; other site 945556006410 proline/glycine betaine transporter; Provisional; Region: PRK10642 945556006411 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 945556006412 putative substrate translocation pore; other site 945556006413 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 945556006414 Spore Coat Protein U domain; Region: SCPU; cl02253 945556006415 Spore Coat Protein U domain; Region: SCPU; pfam05229 945556006416 fimbrial outer membrane usher protein; Provisional; Region: PRK15217 945556006417 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 945556006418 PapC C-terminal domain; Region: PapC_C; pfam13953 945556006419 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 945556006420 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 945556006421 Spore Coat Protein U domain; Region: SCPU; pfam05229 945556006422 Spore Coat Protein U domain; Region: SCPU; cl02253 945556006423 Spore Coat Protein U domain; Region: SCPU; pfam05229 945556006424 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556006425 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556006426 Transcriptional regulators [Transcription]; Region: FadR; COG2186 945556006427 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556006428 DNA-binding site [nucleotide binding]; DNA binding site 945556006429 FCD domain; Region: FCD; pfam07729 945556006430 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 945556006431 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 945556006432 Walker A motif; other site 945556006433 ATP binding site [chemical binding]; other site 945556006434 Walker B motif; other site 945556006435 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 945556006436 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 945556006437 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 945556006438 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 945556006439 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556006440 Helix-turn-helix domain; Region: HTH_18; pfam12833 945556006441 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556006442 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 945556006443 Sensors of blue-light using FAD; Region: BLUF; pfam04940 945556006444 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 945556006445 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 945556006446 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 945556006447 active site 945556006448 Methyltransferase domain; Region: Methyltransf_31; pfam13847 945556006449 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 945556006450 S-adenosylmethionine binding site [chemical binding]; other site 945556006451 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 945556006452 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556006453 active site 945556006454 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; pfam09939 945556006455 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 945556006456 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 945556006457 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 945556006458 tetrameric interface [polypeptide binding]; other site 945556006459 NAD binding site [chemical binding]; other site 945556006460 catalytic residues [active] 945556006461 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 945556006462 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 945556006463 inhibitor-cofactor binding pocket; inhibition site 945556006464 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556006465 catalytic residue [active] 945556006466 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556006467 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556006468 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 945556006469 dimerization interface [polypeptide binding]; other site 945556006470 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 945556006471 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 945556006472 substrate binding site [chemical binding]; other site 945556006473 activation loop (A-loop); other site 945556006474 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 945556006475 Domain of unknown function (DUF3336); Region: DUF3336; pfam11815 945556006476 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 945556006477 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 945556006478 active site 945556006479 nucleophile elbow; other site 945556006480 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 945556006481 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 945556006482 Walker A motif; other site 945556006483 ATP binding site [chemical binding]; other site 945556006484 Walker B motif; other site 945556006485 UGMP family protein; Validated; Region: PRK09604 945556006486 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 945556006487 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 945556006488 Yqey-like protein; Region: YqeY; pfam09424 945556006489 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 945556006490 Peptidase family M48; Region: Peptidase_M48; cl12018 945556006491 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 945556006492 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 945556006493 dimerization interface [polypeptide binding]; other site 945556006494 ligand binding site [chemical binding]; other site 945556006495 NADP binding site [chemical binding]; other site 945556006496 catalytic site [active] 945556006497 Peptidase family M48; Region: Peptidase_M48; cl12018 945556006498 amidophosphoribosyltransferase; Provisional; Region: PRK09246 945556006499 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 945556006500 active site 945556006501 tetramer interface [polypeptide binding]; other site 945556006502 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 945556006503 active site 945556006504 Colicin V production protein; Region: Colicin_V; pfam02674 945556006505 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 945556006506 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 945556006507 quinone interaction residues [chemical binding]; other site 945556006508 active site 945556006509 catalytic residues [active] 945556006510 FMN binding site [chemical binding]; other site 945556006511 substrate binding site [chemical binding]; other site 945556006512 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 945556006513 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 945556006514 GspL periplasmic domain; Region: GspL_C; cl14909 945556006515 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 945556006516 catalytic core [active] 945556006517 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 945556006518 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 945556006519 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 945556006520 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 945556006521 putative FMN binding site [chemical binding]; other site 945556006522 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 945556006523 DEAD-like helicases superfamily; Region: DEXDc; smart00487 945556006524 ATP binding site [chemical binding]; other site 945556006525 Mg++ binding site [ion binding]; other site 945556006526 motif III; other site 945556006527 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 945556006528 nucleotide binding region [chemical binding]; other site 945556006529 ATP-binding site [chemical binding]; other site 945556006530 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 945556006531 DNA-binding site [nucleotide binding]; DNA binding site 945556006532 RNA-binding motif; other site 945556006533 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 945556006534 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 945556006535 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 945556006536 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 945556006537 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 945556006538 DNA binding residues [nucleotide binding] 945556006539 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 945556006540 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 945556006541 thiS-thiF/thiG interaction site; other site 945556006542 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 945556006543 ThiS interaction site; other site 945556006544 putative active site [active] 945556006545 tetramer interface [polypeptide binding]; other site 945556006546 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 945556006547 hypothetical protein; Validated; Region: PRK02101 945556006548 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 945556006549 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 945556006550 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 945556006551 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 945556006552 Walker A motif; other site 945556006553 ATP binding site [chemical binding]; other site 945556006554 Walker B motif; other site 945556006555 arginine finger; other site 945556006556 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 945556006557 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 945556006558 hypothetical protein; Reviewed; Region: PRK09588 945556006559 putative septicolysin, cholesterol-dependent cytolysin family and related proteins; Region: septicolysin_like; cd12208 945556006560 oligomer interface [polypeptide binding]; other site 945556006561 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 945556006562 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 945556006563 putative active site [active] 945556006564 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 945556006565 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 945556006566 metal binding site [ion binding]; metal-binding site 945556006567 dimer interface [polypeptide binding]; other site 945556006568 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 945556006569 prephenate dehydrogenase; Validated; Region: PRK08507 945556006570 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 945556006571 hinge; other site 945556006572 active site 945556006573 Chorismate mutase type II; Region: CM_2; cl00693 945556006574 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 945556006575 Prephenate dehydratase; Region: PDT; pfam00800 945556006576 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 945556006577 putative L-Phe binding site [chemical binding]; other site 945556006578 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 945556006579 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 945556006580 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556006581 active site 945556006582 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 945556006583 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 945556006584 hypothetical protein; Validated; Region: PRK09071 945556006585 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 945556006586 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 945556006587 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 945556006588 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 945556006589 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 945556006590 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 945556006591 Transglycosylase; Region: Transgly; pfam00912 945556006592 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 945556006593 hypothetical protein; Provisional; Region: PRK08999 945556006594 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 945556006595 active site 945556006596 8-oxo-dGMP binding site [chemical binding]; other site 945556006597 nudix motif; other site 945556006598 metal binding site [ion binding]; metal-binding site 945556006599 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 945556006600 thiamine phosphate binding site [chemical binding]; other site 945556006601 active site 945556006602 Hemin uptake protein hemP; Region: hemP; cl10043 945556006603 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 945556006604 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 945556006605 dimer interface [polypeptide binding]; other site 945556006606 phosphorylation site [posttranslational modification] 945556006607 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 945556006608 ATP binding site [chemical binding]; other site 945556006609 Mg2+ binding site [ion binding]; other site 945556006610 G-X-G motif; other site 945556006611 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 945556006612 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 945556006613 active site 945556006614 phosphorylation site [posttranslational modification] 945556006615 intermolecular recognition site; other site 945556006616 dimerization interface [polypeptide binding]; other site 945556006617 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 945556006618 DNA binding site [nucleotide binding] 945556006619 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 945556006620 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 945556006621 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 945556006622 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 945556006623 Walker A motif; other site 945556006624 ATP binding site [chemical binding]; other site 945556006625 Walker B motif; other site 945556006626 Predicted membrane protein [Function unknown]; Region: COG3174 945556006627 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 945556006628 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 945556006629 homodimer interaction site [polypeptide binding]; other site 945556006630 cofactor binding site; other site 945556006631 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 945556006632 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 945556006633 FAD binding pocket [chemical binding]; other site 945556006634 FAD binding motif [chemical binding]; other site 945556006635 phosphate binding motif [ion binding]; other site 945556006636 beta-alpha-beta structure motif; other site 945556006637 NAD binding pocket [chemical binding]; other site 945556006638 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 945556006639 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 945556006640 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 945556006641 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556006642 DNA-binding site [nucleotide binding]; DNA binding site 945556006643 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 945556006644 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556006645 homodimer interface [polypeptide binding]; other site 945556006646 catalytic residue [active] 945556006647 putative protease; Provisional; Region: PRK15452 945556006648 Peptidase family U32; Region: Peptidase_U32; pfam01136 945556006649 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 945556006650 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 945556006651 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 945556006652 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 945556006653 Walker A/P-loop; other site 945556006654 ATP binding site [chemical binding]; other site 945556006655 Q-loop/lid; other site 945556006656 ABC transporter signature motif; other site 945556006657 Walker B; other site 945556006658 D-loop; other site 945556006659 H-loop/switch region; other site 945556006660 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 945556006661 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556006662 dimer interface [polypeptide binding]; other site 945556006663 conserved gate region; other site 945556006664 putative PBP binding loops; other site 945556006665 ABC-ATPase subunit interface; other site 945556006666 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 945556006667 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556006668 dimer interface [polypeptide binding]; other site 945556006669 conserved gate region; other site 945556006670 putative PBP binding loops; other site 945556006671 ABC-ATPase subunit interface; other site 945556006672 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 945556006673 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 945556006674 substrate binding pocket [chemical binding]; other site 945556006675 membrane-bound complex binding site; other site 945556006676 hinge residues; other site 945556006677 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556006678 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556006679 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 945556006680 putative effector binding pocket; other site 945556006681 putative dimerization interface [polypeptide binding]; other site 945556006682 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 945556006683 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 945556006684 HlyD family secretion protein; Region: HlyD_3; pfam13437 945556006685 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 945556006686 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 945556006687 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 945556006688 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 945556006689 dimer interface [polypeptide binding]; other site 945556006690 active site 945556006691 glycine-pyridoxal phosphate binding site [chemical binding]; other site 945556006692 folate binding site [chemical binding]; other site 945556006693 Secretory lipase; Region: LIP; pfam03583 945556006694 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 945556006695 exodeoxyribonuclease X; Provisional; Region: PRK07983 945556006696 active site 945556006697 catalytic site [active] 945556006698 substrate binding site [chemical binding]; other site 945556006699 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 945556006700 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 945556006701 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 945556006702 Walker A/P-loop; other site 945556006703 ATP binding site [chemical binding]; other site 945556006704 Q-loop/lid; other site 945556006705 ABC transporter signature motif; other site 945556006706 Walker B; other site 945556006707 D-loop; other site 945556006708 H-loop/switch region; other site 945556006709 inner membrane transport permease; Provisional; Region: PRK15066 945556006710 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 945556006711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 945556006712 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 945556006713 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 945556006714 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 945556006715 Transglycosylase SLT domain; Region: SLT_2; pfam13406 945556006716 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 945556006717 N-acetyl-D-glucosamine binding site [chemical binding]; other site 945556006718 catalytic residue [active] 945556006719 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 945556006720 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 945556006721 Protein of unknown function (DUF962); Region: DUF962; cl01879 945556006722 AzlC protein; Region: AzlC; cl00570 945556006723 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 945556006724 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 945556006725 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556006726 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556006727 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 945556006728 elongation factor Ts; Provisional; Region: tsf; PRK09377 945556006729 UBA/TS-N domain; Region: UBA; pfam00627 945556006730 Elongation factor TS; Region: EF_TS; pfam00889 945556006731 Elongation factor TS; Region: EF_TS; pfam00889 945556006732 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 945556006733 rRNA interaction site [nucleotide binding]; other site 945556006734 S8 interaction site; other site 945556006735 putative laminin-1 binding site; other site 945556006736 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 945556006737 active site 945556006738 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 945556006739 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 945556006740 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 945556006741 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 945556006742 Major Facilitator Superfamily; Region: MFS_1; pfam07690 945556006743 putative substrate translocation pore; other site 945556006744 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 945556006745 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 945556006746 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 945556006747 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 945556006748 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 945556006749 lipoyl synthase; Provisional; Region: PRK05481 945556006750 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 945556006751 FeS/SAM binding site; other site 945556006752 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 945556006753 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556006754 active site 945556006755 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 945556006756 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 945556006757 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 945556006758 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 945556006759 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 945556006760 homotetramer interface [polypeptide binding]; other site 945556006761 ligand binding site [chemical binding]; other site 945556006762 catalytic site [active] 945556006763 NAD binding site [chemical binding]; other site 945556006764 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 945556006765 FAD binding site [chemical binding]; other site 945556006766 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 945556006767 RNA methyltransferase, RsmE family; Region: TIGR00046 945556006768 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 945556006769 PAS fold; Region: PAS_3; pfam08447 945556006770 heme pocket [chemical binding]; other site 945556006771 putative active site [active] 945556006772 PAS domain S-box; Region: sensory_box; TIGR00229 945556006773 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 945556006774 putative active site [active] 945556006775 heme pocket [chemical binding]; other site 945556006776 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 945556006777 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 945556006778 metal binding site [ion binding]; metal-binding site 945556006779 active site 945556006780 I-site; other site 945556006781 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 945556006782 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 945556006783 Malic enzyme, N-terminal domain; Region: malic; pfam00390 945556006784 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 945556006785 putative NAD(P) binding site [chemical binding]; other site 945556006786 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 945556006787 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 945556006788 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 945556006789 active site 945556006790 NTP binding site [chemical binding]; other site 945556006791 metal binding triad [ion binding]; metal-binding site 945556006792 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 945556006793 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 945556006794 Zn2+ binding site [ion binding]; other site 945556006795 Mg2+ binding site [ion binding]; other site 945556006796 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 945556006797 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 945556006798 protein binding site [polypeptide binding]; other site 945556006799 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 945556006800 Uncharacterized conserved protein [Function unknown]; Region: COG0327 945556006801 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 945556006802 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 945556006803 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 945556006804 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 945556006805 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 945556006806 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 945556006807 UbiA prenyltransferase family; Region: UbiA; pfam01040 945556006808 Chorismate lyase; Region: Chor_lyase; cl01230 945556006809 glutamine synthetase; Provisional; Region: glnA; PRK09469 945556006810 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 945556006811 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 945556006812 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 945556006813 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 945556006814 putative substrate translocation pore; other site 945556006815 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 945556006816 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 945556006817 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 945556006818 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 945556006819 active site 945556006820 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 945556006821 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 945556006822 glutamine binding [chemical binding]; other site 945556006823 catalytic triad [active] 945556006824 Peptidase family M1; Region: Peptidase_M1; pfam01433 945556006825 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 945556006826 Zn binding site [ion binding]; other site 945556006827 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 945556006828 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 945556006829 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 945556006830 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 945556006831 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 945556006832 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 945556006833 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 945556006834 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 945556006835 active site 945556006836 ribulose/triose binding site [chemical binding]; other site 945556006837 phosphate binding site [ion binding]; other site 945556006838 substrate (anthranilate) binding pocket [chemical binding]; other site 945556006839 product (indole) binding pocket [chemical binding]; other site 945556006840 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 945556006841 Smr domain; Region: Smr; pfam01713 945556006842 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 945556006843 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 945556006844 XdhC Rossmann domain; Region: XdhC_C; pfam13478 945556006845 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 945556006846 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 945556006847 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 945556006848 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 945556006849 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 945556006850 catalytic loop [active] 945556006851 iron binding site [ion binding]; other site 945556006852 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 945556006853 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 945556006854 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 945556006855 homodecamer interface [polypeptide binding]; other site 945556006856 GTP cyclohydrolase I; Provisional; Region: PLN03044 945556006857 active site 945556006858 putative catalytic site residues [active] 945556006859 zinc binding site [ion binding]; other site 945556006860 GTP-CH-I/GFRP interaction surface; other site 945556006861 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 945556006862 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 945556006863 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 945556006864 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 945556006865 Protein of unknown function (DUF817); Region: DUF817; pfam05675 945556006866 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 945556006867 substrate binding site [chemical binding]; other site 945556006868 active site 945556006869 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 945556006870 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 945556006871 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 945556006872 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 945556006873 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 945556006874 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 945556006875 Thioesterase domain; Region: Thioesterase; pfam00975 945556006876 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 945556006877 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 945556006878 Walker A/P-loop; other site 945556006879 ATP binding site [chemical binding]; other site 945556006880 Q-loop/lid; other site 945556006881 ABC transporter signature motif; other site 945556006882 Walker B; other site 945556006883 D-loop; other site 945556006884 H-loop/switch region; other site 945556006885 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 945556006886 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 945556006887 Walker A/P-loop; other site 945556006888 ATP binding site [chemical binding]; other site 945556006889 Q-loop/lid; other site 945556006890 ABC transporter signature motif; other site 945556006891 Walker B; other site 945556006892 D-loop; other site 945556006893 H-loop/switch region; other site 945556006894 histidine decarboxylase; Provisional; Region: PRK02769 945556006895 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 945556006896 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 945556006897 catalytic residue [active] 945556006898 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 945556006899 hydrophobic substrate binding pocket; other site 945556006900 Isochorismatase family; Region: Isochorismatase; pfam00857 945556006901 active site 945556006902 conserved cis-peptide bond; other site 945556006903 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 945556006904 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 945556006905 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 945556006906 acyl-activating enzyme (AAE) consensus motif; other site 945556006907 active site 945556006908 AMP binding site [chemical binding]; other site 945556006909 substrate binding site [chemical binding]; other site 945556006910 Condensation domain; Region: Condensation; pfam00668 945556006911 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 945556006912 Nonribosomal peptide synthase; Region: NRPS; pfam08415 945556006913 Condensation domain; Region: Condensation; pfam00668 945556006914 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 945556006915 Nonribosomal peptide synthase; Region: NRPS; pfam08415 945556006916 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 945556006917 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 945556006918 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 945556006919 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 945556006920 N-terminal plug; other site 945556006921 ligand-binding site [chemical binding]; other site 945556006922 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 945556006923 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 945556006924 putative ligand binding residues [chemical binding]; other site 945556006925 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 945556006926 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 945556006927 Walker A/P-loop; other site 945556006928 ATP binding site [chemical binding]; other site 945556006929 Q-loop/lid; other site 945556006930 ABC transporter signature motif; other site 945556006931 Walker B; other site 945556006932 D-loop; other site 945556006933 H-loop/switch region; other site 945556006934 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 945556006935 ABC-ATPase subunit interface; other site 945556006936 dimer interface [polypeptide binding]; other site 945556006937 putative PBP binding regions; other site 945556006938 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 945556006939 ABC-ATPase subunit interface; other site 945556006940 dimer interface [polypeptide binding]; other site 945556006941 putative PBP binding regions; other site 945556006942 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 945556006943 Condensation domain; Region: Condensation; pfam00668 945556006944 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 945556006945 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 945556006946 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 945556006947 acyl-activating enzyme (AAE) consensus motif; other site 945556006948 AMP binding site [chemical binding]; other site 945556006949 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 945556006950 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 945556006951 FAD binding pocket [chemical binding]; other site 945556006952 FAD binding motif [chemical binding]; other site 945556006953 phosphate binding motif [ion binding]; other site 945556006954 NAD binding pocket [chemical binding]; other site 945556006955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 945556006956 YheO-like PAS domain; Region: PAS_6; pfam08348 945556006957 HTH domain; Region: HTH_22; pfam13309 945556006958 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 945556006959 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 945556006960 tetramer interface [polypeptide binding]; other site 945556006961 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556006962 catalytic residue [active] 945556006963 Pirin-related protein [General function prediction only]; Region: COG1741 945556006964 Pirin; Region: Pirin; pfam02678 945556006965 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556006966 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556006967 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 945556006968 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 945556006969 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 945556006970 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556006971 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 945556006972 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 945556006973 putative NADP binding site [chemical binding]; other site 945556006974 putative substrate binding site [chemical binding]; other site 945556006975 active site 945556006976 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 945556006977 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 945556006978 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 945556006979 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 945556006980 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 945556006981 Trypsin; Region: Trypsin; pfam00089 945556006982 active site 945556006983 LysR family transcriptional regulator; Provisional; Region: PRK14997 945556006984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556006985 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 945556006986 putative effector binding pocket; other site 945556006987 putative dimerization interface [polypeptide binding]; other site 945556006988 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 945556006989 Isochorismatase family; Region: Isochorismatase; pfam00857 945556006990 catalytic triad [active] 945556006991 dimer interface [polypeptide binding]; other site 945556006992 conserved cis-peptide bond; other site 945556006993 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 945556006994 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 945556006995 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 945556006996 Fatty acid desaturase; Region: FA_desaturase; pfam00487 945556006997 putative di-iron ligands [ion binding]; other site 945556006998 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 945556006999 putative di-iron ligands [ion binding]; other site 945556007000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556007001 NAD(P) binding site [chemical binding]; other site 945556007002 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 945556007003 active site 945556007004 PaaX-like protein; Region: PaaX; pfam07848 945556007005 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 945556007006 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 945556007007 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 945556007008 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 945556007009 active site 945556007010 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 945556007011 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 945556007012 Protein of unknown function (DUF466); Region: DUF466; pfam04328 945556007013 carbon starvation protein A; Provisional; Region: PRK15015 945556007014 Carbon starvation protein CstA; Region: CstA; pfam02554 945556007015 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 945556007016 elongation factor P; Validated; Region: PRK00529 945556007017 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 945556007018 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 945556007019 RNA binding site [nucleotide binding]; other site 945556007020 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 945556007021 RNA binding site [nucleotide binding]; other site 945556007022 Radical SAM superfamily; Region: Radical_SAM; pfam04055 945556007023 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 945556007024 FeS/SAM binding site; other site 945556007025 PAS domain S-box; Region: sensory_box; TIGR00229 945556007026 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 945556007027 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 945556007028 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 945556007029 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 945556007030 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 945556007031 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 945556007032 dimer interface [polypeptide binding]; other site 945556007033 active site 945556007034 metal binding site [ion binding]; metal-binding site 945556007035 glutathione binding site [chemical binding]; other site 945556007036 muropeptide transporter; Validated; Region: ampG; cl17669 945556007037 muropeptide transporter; Validated; Region: ampG; cl17669 945556007038 muropeptide transporter; Validated; Region: ampG; cl17669 945556007039 AAA domain; Region: AAA_32; pfam13654 945556007040 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; cl00148 945556007041 primary dimer interface [polypeptide binding]; other site 945556007042 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 945556007043 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 945556007044 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556007045 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556007046 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 945556007047 putative effector binding pocket; other site 945556007048 dimerization interface [polypeptide binding]; other site 945556007049 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 945556007050 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 945556007051 Peptidase family M23; Region: Peptidase_M23; pfam01551 945556007052 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 945556007053 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 945556007054 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 945556007055 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 945556007056 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 945556007057 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 945556007058 trimer interface [polypeptide binding]; other site 945556007059 putative metal binding site [ion binding]; other site 945556007060 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 945556007061 nudix motif; other site 945556007062 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 945556007063 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 945556007064 putative lysogenization regulator; Reviewed; Region: PRK00218 945556007065 adenylosuccinate lyase; Provisional; Region: PRK09285 945556007066 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 945556007067 tetramer interface [polypeptide binding]; other site 945556007068 active site 945556007069 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 945556007070 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 945556007071 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 945556007072 tandem repeat interface [polypeptide binding]; other site 945556007073 oligomer interface [polypeptide binding]; other site 945556007074 active site residues [active] 945556007075 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 945556007076 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 945556007077 Walker A/P-loop; other site 945556007078 ATP binding site [chemical binding]; other site 945556007079 Q-loop/lid; other site 945556007080 ABC transporter signature motif; other site 945556007081 Walker B; other site 945556007082 D-loop; other site 945556007083 H-loop/switch region; other site 945556007084 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 945556007085 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 945556007086 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556007087 dimer interface [polypeptide binding]; other site 945556007088 conserved gate region; other site 945556007089 putative PBP binding loops; other site 945556007090 ABC-ATPase subunit interface; other site 945556007091 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 945556007092 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 945556007093 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556007094 dimer interface [polypeptide binding]; other site 945556007095 conserved gate region; other site 945556007096 putative PBP binding loops; other site 945556007097 ABC-ATPase subunit interface; other site 945556007098 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 945556007099 aromatic amino acid transporter; Provisional; Region: PRK10238 945556007100 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 945556007101 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 945556007102 dimer interface [polypeptide binding]; other site 945556007103 PYR/PP interface [polypeptide binding]; other site 945556007104 TPP binding site [chemical binding]; other site 945556007105 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 945556007106 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 945556007107 TPP-binding site [chemical binding]; other site 945556007108 dimer interface [polypeptide binding]; other site 945556007109 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 945556007110 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 945556007111 AsnC family; Region: AsnC_trans_reg; pfam01037 945556007112 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 945556007113 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 945556007114 NAD(P) binding site [chemical binding]; other site 945556007115 catalytic residues [active] 945556007116 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 945556007117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556007118 catalytic residue [active] 945556007119 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 945556007120 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 945556007121 inhibitor-cofactor binding pocket; inhibition site 945556007122 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556007123 catalytic residue [active] 945556007124 Protein of unknown function (DUF541); Region: SIMPL; cl01077 945556007125 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556007126 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556007127 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 945556007128 dimerization interface [polypeptide binding]; other site 945556007129 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 945556007130 Fatty acid desaturase; Region: FA_desaturase; pfam00487 945556007131 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 945556007132 putative di-iron ligands [ion binding]; other site 945556007133 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 945556007134 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 945556007135 FAD binding pocket [chemical binding]; other site 945556007136 FAD binding motif [chemical binding]; other site 945556007137 phosphate binding motif [ion binding]; other site 945556007138 beta-alpha-beta structure motif; other site 945556007139 NAD binding pocket [chemical binding]; other site 945556007140 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 945556007141 catalytic loop [active] 945556007142 iron binding site [ion binding]; other site 945556007143 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 945556007144 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556007145 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 945556007146 ATP-dependent helicase HepA; Validated; Region: PRK04914 945556007147 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 945556007148 ATP binding site [chemical binding]; other site 945556007149 putative Mg++ binding site [ion binding]; other site 945556007150 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 945556007151 nucleotide binding region [chemical binding]; other site 945556007152 ATP-binding site [chemical binding]; other site 945556007153 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 945556007154 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 945556007155 active site 945556007156 Phosphopantetheine attachment site; Region: PP-binding; cl09936 945556007157 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 945556007158 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 945556007159 inhibitor-cofactor binding pocket; inhibition site 945556007160 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556007161 catalytic residue [active] 945556007162 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 945556007163 thiamine phosphate binding site [chemical binding]; other site 945556007164 active site 945556007165 pyrophosphate binding site [ion binding]; other site 945556007166 Protein of unknown function (DUF962); Region: DUF962; pfam06127 945556007167 Uncharacterized conserved protein [Function unknown]; Region: COG3025 945556007168 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 945556007169 putative active site [active] 945556007170 putative metal binding residues [ion binding]; other site 945556007171 signature motif; other site 945556007172 putative triphosphate binding site [ion binding]; other site 945556007173 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 945556007174 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 945556007175 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 945556007176 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 945556007177 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 945556007178 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 945556007179 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 945556007180 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 945556007181 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 945556007182 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 945556007183 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556007184 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556007185 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 945556007186 putative dimerization interface [polypeptide binding]; other site 945556007187 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 945556007188 putative substrate translocation pore; other site 945556007189 isocitrate dehydrogenase; Validated; Region: PRK06451 945556007190 isocitrate dehydrogenase; Reviewed; Region: PRK07006 945556007191 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 945556007192 pseudouridine synthase; Region: TIGR00093 945556007193 active site 945556007194 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 945556007195 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 945556007196 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 945556007197 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 945556007198 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 945556007199 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 945556007200 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 945556007201 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 945556007202 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 945556007203 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 945556007204 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 945556007205 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 945556007206 DNA photolyase; Region: DNA_photolyase; pfam00875 945556007207 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 945556007208 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 945556007209 DXD motif; other site 945556007210 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 945556007211 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 945556007212 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 945556007213 active site 945556007214 homodimer interface [polypeptide binding]; other site 945556007215 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 945556007216 TPR motif; other site 945556007217 binding surface 945556007218 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 945556007219 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 945556007220 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 945556007221 FMN binding site [chemical binding]; other site 945556007222 substrate binding site [chemical binding]; other site 945556007223 putative catalytic residue [active] 945556007224 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 945556007225 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 945556007226 FMN binding site [chemical binding]; other site 945556007227 active site 945556007228 catalytic residues [active] 945556007229 substrate binding site [chemical binding]; other site 945556007230 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 945556007231 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 945556007232 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 945556007233 gamma-glutamyl kinase; Provisional; Region: PRK05429 945556007234 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 945556007235 nucleotide binding site [chemical binding]; other site 945556007236 homotetrameric interface [polypeptide binding]; other site 945556007237 putative phosphate binding site [ion binding]; other site 945556007238 putative allosteric binding site; other site 945556007239 PUA domain; Region: PUA; pfam01472 945556007240 GTPase CgtA; Reviewed; Region: obgE; PRK12298 945556007241 GTP1/OBG; Region: GTP1_OBG; pfam01018 945556007242 Obg GTPase; Region: Obg; cd01898 945556007243 G1 box; other site 945556007244 GTP/Mg2+ binding site [chemical binding]; other site 945556007245 Switch I region; other site 945556007246 G2 box; other site 945556007247 G3 box; other site 945556007248 Switch II region; other site 945556007249 G4 box; other site 945556007250 G5 box; other site 945556007251 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 945556007252 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 945556007253 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 945556007254 Predicted permeases [General function prediction only]; Region: RarD; COG2962 945556007255 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 945556007256 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 945556007257 excinuclease ABC subunit B; Provisional; Region: PRK05298 945556007258 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 945556007259 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 945556007260 ATP-binding site [chemical binding]; other site 945556007261 ATP binding site [chemical binding]; other site 945556007262 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 945556007263 nucleotide binding region [chemical binding]; other site 945556007264 ATP-binding site [chemical binding]; other site 945556007265 Ultra-violet resistance protein B; Region: UvrB; pfam12344 945556007266 UvrB/uvrC motif; Region: UVR; pfam02151 945556007267 hypothetical protein; Region: PHA00684 945556007268 PAS domain; Region: PAS_9; pfam13426 945556007269 PAS domain; Region: PAS_9; pfam13426 945556007270 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 945556007271 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 945556007272 metal binding site [ion binding]; metal-binding site 945556007273 active site 945556007274 I-site; other site 945556007275 aspartate aminotransferase; Provisional; Region: PRK05764 945556007276 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 945556007277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556007278 homodimer interface [polypeptide binding]; other site 945556007279 catalytic residue [active] 945556007280 Uncharacterized conserved protein [Function unknown]; Region: COG3791 945556007281 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 945556007282 CoenzymeA binding site [chemical binding]; other site 945556007283 subunit interaction site [polypeptide binding]; other site 945556007284 PHB binding site; other site 945556007285 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556007286 malonic semialdehyde reductase; Provisional; Region: PRK10538 945556007287 NAD(P) binding site [chemical binding]; other site 945556007288 active site 945556007289 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 945556007290 active site 945556007291 dinuclear metal binding site [ion binding]; other site 945556007292 dimerization interface [polypeptide binding]; other site 945556007293 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 945556007294 active site 945556007295 hydrophilic channel; other site 945556007296 dimerization interface [polypeptide binding]; other site 945556007297 catalytic residues [active] 945556007298 active site lid [active] 945556007299 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 945556007300 Recombination protein O N terminal; Region: RecO_N; pfam11967 945556007301 Recombination protein O C terminal; Region: RecO_C; pfam02565 945556007302 GTPase Era; Reviewed; Region: era; PRK00089 945556007303 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 945556007304 G1 box; other site 945556007305 GTP/Mg2+ binding site [chemical binding]; other site 945556007306 Switch I region; other site 945556007307 G2 box; other site 945556007308 Switch II region; other site 945556007309 G3 box; other site 945556007310 G4 box; other site 945556007311 G5 box; other site 945556007312 KH domain; Region: KH_2; pfam07650 945556007313 ribonuclease III; Reviewed; Region: rnc; PRK00102 945556007314 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 945556007315 metal binding site [ion binding]; metal-binding site 945556007316 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 945556007317 dsRNA binding site [nucleotide binding]; other site 945556007318 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 945556007319 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 945556007320 Catalytic site [active] 945556007321 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 945556007322 GTP-binding protein LepA; Provisional; Region: PRK05433 945556007323 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 945556007324 G1 box; other site 945556007325 putative GEF interaction site [polypeptide binding]; other site 945556007326 GTP/Mg2+ binding site [chemical binding]; other site 945556007327 Switch I region; other site 945556007328 G2 box; other site 945556007329 G3 box; other site 945556007330 Switch II region; other site 945556007331 G4 box; other site 945556007332 G5 box; other site 945556007333 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 945556007334 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 945556007335 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 945556007336 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 945556007337 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 945556007338 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 945556007339 active site 945556007340 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 945556007341 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 945556007342 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 945556007343 protein binding site [polypeptide binding]; other site 945556007344 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 945556007345 protein binding site [polypeptide binding]; other site 945556007346 L-aspartate oxidase; Provisional; Region: PRK09077 945556007347 L-aspartate oxidase; Provisional; Region: PRK06175 945556007348 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 945556007349 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 945556007350 CoenzymeA binding site [chemical binding]; other site 945556007351 subunit interaction site [polypeptide binding]; other site 945556007352 PHB binding site; other site 945556007353 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 945556007354 thymidylate kinase; Validated; Region: tmk; PRK00698 945556007355 TMP-binding site; other site 945556007356 ATP-binding site [chemical binding]; other site 945556007357 YceG-like family; Region: YceG; pfam02618 945556007358 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 945556007359 dimerization interface [polypeptide binding]; other site 945556007360 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 945556007361 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 945556007362 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556007363 catalytic residue [active] 945556007364 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 945556007365 substrate binding pocket [chemical binding]; other site 945556007366 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 945556007367 membrane-bound complex binding site; other site 945556007368 hinge residues; other site 945556007369 Serine hydrolase; Region: Ser_hydrolase; pfam06821 945556007370 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 945556007371 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 945556007372 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556007373 dimer interface [polypeptide binding]; other site 945556007374 conserved gate region; other site 945556007375 putative PBP binding loops; other site 945556007376 ABC-ATPase subunit interface; other site 945556007377 sulfate transport protein; Provisional; Region: cysT; CHL00187 945556007378 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 945556007379 dimer interface [polypeptide binding]; other site 945556007380 conserved gate region; other site 945556007381 putative PBP binding loops; other site 945556007382 ABC-ATPase subunit interface; other site 945556007383 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 945556007384 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 945556007385 Walker A/P-loop; other site 945556007386 ATP binding site [chemical binding]; other site 945556007387 Q-loop/lid; other site 945556007388 ABC transporter signature motif; other site 945556007389 Walker B; other site 945556007390 D-loop; other site 945556007391 H-loop/switch region; other site 945556007392 TOBE-like domain; Region: TOBE_3; pfam12857 945556007393 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 945556007394 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556007395 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 945556007396 substrate binding site [chemical binding]; other site 945556007397 dimerization interface [polypeptide binding]; other site 945556007398 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 945556007399 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 945556007400 active site 945556007401 substrate binding site [chemical binding]; other site 945556007402 trimer interface [polypeptide binding]; other site 945556007403 CoA binding site [chemical binding]; other site 945556007404 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 945556007405 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 945556007406 FeS/SAM binding site; other site 945556007407 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 945556007408 Ligand Binding Site [chemical binding]; other site 945556007409 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 945556007410 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 945556007411 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 945556007412 catalytic triad [active] 945556007413 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 945556007414 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 945556007415 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 945556007416 active site 945556007417 KMSKS motif; other site 945556007418 enoyl-CoA hydratase; Provisional; Region: PRK06688 945556007419 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 945556007420 substrate binding site [chemical binding]; other site 945556007421 oxyanion hole (OAH) forming residues; other site 945556007422 trimer interface [polypeptide binding]; other site 945556007423 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 945556007424 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 945556007425 putative substrate translocation pore; other site 945556007426 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 945556007427 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 945556007428 dimerization interface [polypeptide binding]; other site 945556007429 ATP binding site [chemical binding]; other site 945556007430 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 945556007431 dimerization interface [polypeptide binding]; other site 945556007432 ATP binding site [chemical binding]; other site 945556007433 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 945556007434 putative active site [active] 945556007435 catalytic triad [active] 945556007436 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 945556007437 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 945556007438 Zn2+ binding site [ion binding]; other site 945556007439 Mg2+ binding site [ion binding]; other site 945556007440 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 945556007441 RuvA N terminal domain; Region: RuvA_N; pfam01330 945556007442 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 945556007443 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 945556007444 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 945556007445 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 945556007446 Walker A motif; other site 945556007447 ATP binding site [chemical binding]; other site 945556007448 Walker B motif; other site 945556007449 arginine finger; other site 945556007450 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 945556007451 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 945556007452 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 945556007453 metal binding site [ion binding]; metal-binding site 945556007454 putative dimer interface [polypeptide binding]; other site 945556007455 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 945556007456 active site 945556007457 TolQ protein; Region: tolQ; TIGR02796 945556007458 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 945556007459 TolR protein; Region: tolR; TIGR02801 945556007460 TolA protein; Region: tolA_full; TIGR02794 945556007461 TonB C terminal; Region: TonB_2; pfam13103 945556007462 translocation protein TolB; Provisional; Region: tolB; PRK04922 945556007463 TolB amino-terminal domain; Region: TolB_N; pfam04052 945556007464 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 945556007465 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 945556007466 putative outer membrane lipoprotein; Provisional; Region: PRK09967 945556007467 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 945556007468 ligand binding site [chemical binding]; other site 945556007469 fructose-1,6-bisphosphatase family protein; Region: PLN02628 945556007470 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 945556007471 AMP binding site [chemical binding]; other site 945556007472 metal binding site [ion binding]; metal-binding site 945556007473 active site 945556007474 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 945556007475 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 945556007476 RNA polymerase factor sigma-70; Validated; Region: PRK09047 945556007477 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 945556007478 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 945556007479 DNA binding residues [nucleotide binding] 945556007480 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 945556007481 CSLREA domain; Region: CSLREA_Nterm; TIGR04214 945556007482 Acinetobacter rhombotarget A; Region: GlyGly_RbtA; TIGR04212 945556007483 CSLREA domain; Region: CSLREA_Nterm; TIGR04214 945556007484 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 945556007485 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 945556007486 Walker A motif; other site 945556007487 ATP binding site [chemical binding]; other site 945556007488 Walker B motif; other site 945556007489 arginine finger; other site 945556007490 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 945556007491 Domain of unknown function DUF20; Region: UPF0118; pfam01594 945556007492 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 945556007493 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 945556007494 dimerization interface [polypeptide binding]; other site 945556007495 putative ATP binding site [chemical binding]; other site 945556007496 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 945556007497 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 945556007498 active site 945556007499 substrate binding site [chemical binding]; other site 945556007500 cosubstrate binding site; other site 945556007501 catalytic site [active] 945556007502 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 945556007503 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 945556007504 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 945556007505 tandem repeat interface [polypeptide binding]; other site 945556007506 oligomer interface [polypeptide binding]; other site 945556007507 active site residues [active] 945556007508 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 945556007509 putative acyl-acceptor binding pocket; other site 945556007510 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 945556007511 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 945556007512 Competence protein; Region: Competence; pfam03772 945556007513 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 945556007514 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 945556007515 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 945556007516 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 945556007517 Walker A/P-loop; other site 945556007518 ATP binding site [chemical binding]; other site 945556007519 Q-loop/lid; other site 945556007520 ABC transporter signature motif; other site 945556007521 Walker B; other site 945556007522 D-loop; other site 945556007523 H-loop/switch region; other site 945556007524 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 945556007525 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 945556007526 FtsX-like permease family; Region: FtsX; pfam02687 945556007527 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 945556007528 EamA-like transporter family; Region: EamA; pfam00892 945556007529 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 945556007530 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 945556007531 homodimer interface [polypeptide binding]; other site 945556007532 substrate-cofactor binding pocket; other site 945556007533 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556007534 catalytic residue [active] 945556007535 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 945556007536 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 945556007537 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 945556007538 HlyD family secretion protein; Region: HlyD_3; pfam13437 945556007539 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 945556007540 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 945556007541 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 945556007542 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 945556007543 putative active site [active] 945556007544 YdjC motif; other site 945556007545 Mg binding site [ion binding]; other site 945556007546 putative homodimer interface [polypeptide binding]; other site 945556007547 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 945556007548 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 945556007549 Ligand binding site; other site 945556007550 Putative Catalytic site; other site 945556007551 DXD motif; other site 945556007552 GtrA-like protein; Region: GtrA; pfam04138 945556007553 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 945556007554 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 945556007555 DNA gyrase subunit A; Validated; Region: PRK05560 945556007556 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 945556007557 CAP-like domain; other site 945556007558 active site 945556007559 primary dimer interface [polypeptide binding]; other site 945556007560 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 945556007561 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 945556007562 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 945556007563 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 945556007564 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 945556007565 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 945556007566 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 945556007567 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 945556007568 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 945556007569 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 945556007570 Ligand binding site [chemical binding]; other site 945556007571 Electron transfer flavoprotein domain; Region: ETF; pfam01012 945556007572 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 945556007573 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 945556007574 active site 945556007575 DNA binding site [nucleotide binding] 945556007576 Int/Topo IB signature motif; other site 945556007577 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 945556007578 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 945556007579 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 945556007580 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 945556007581 diaminopimelate decarboxylase; Region: lysA; TIGR01048 945556007582 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 945556007583 active site 945556007584 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 945556007585 substrate binding site [chemical binding]; other site 945556007586 catalytic residues [active] 945556007587 dimer interface [polypeptide binding]; other site 945556007588 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 945556007589 DNA repair protein RadA; Provisional; Region: PRK11823 945556007590 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 945556007591 Walker A motif/ATP binding site; other site 945556007592 ATP binding site [chemical binding]; other site 945556007593 Walker B motif; other site 945556007594 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 945556007595 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 945556007596 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 945556007597 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 945556007598 motif 1; other site 945556007599 dimer interface [polypeptide binding]; other site 945556007600 active site 945556007601 motif 2; other site 945556007602 motif 3; other site 945556007603 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 945556007604 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 945556007605 ligand binding site [chemical binding]; other site 945556007606 NAD binding site [chemical binding]; other site 945556007607 catalytic site [active] 945556007608 homodimer interface [polypeptide binding]; other site 945556007609 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 945556007610 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 945556007611 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 945556007612 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 945556007613 putative molybdopterin cofactor binding site [chemical binding]; other site 945556007614 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 945556007615 putative molybdopterin cofactor binding site; other site 945556007616 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 945556007617 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556007618 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556007619 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 945556007620 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556007621 NAD(P) binding site [chemical binding]; other site 945556007622 active site 945556007623 Nitroreductase-like family 1. 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_1; cd02137 945556007624 dimer interface [polypeptide binding]; other site 945556007625 FMN binding site [chemical binding]; other site 945556007626 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556007627 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556007628 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 945556007629 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556007630 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556007631 Uncharacterized protein conserved in bacteria (DUF2084); Region: DUF2084; cl01566 945556007632 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 945556007633 Coenzyme A binding pocket [chemical binding]; other site 945556007634 The adenylation (A) domain of siderophore-synthesizing nonribosomal peptide synthetases (NRPS); Region: A_NRPS_SidN3_like; cd05918 945556007635 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 945556007636 acyl-activating enzyme (AAE) consensus motif; other site 945556007637 AMP binding site [chemical binding]; other site 945556007638 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 945556007639 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 945556007640 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 945556007641 putative trimer interface [polypeptide binding]; other site 945556007642 putative CoA binding site [chemical binding]; other site 945556007643 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 945556007644 putative CoA binding site [chemical binding]; other site 945556007645 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 945556007646 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 945556007647 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 945556007648 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 945556007649 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 945556007650 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 945556007651 N-acetyl-D-glucosamine binding site [chemical binding]; other site 945556007652 catalytic residue [active] 945556007653 SCP-2 sterol transfer family; Region: SCP2; pfam02036 945556007654 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 945556007655 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 945556007656 Ligand Binding Site [chemical binding]; other site 945556007657 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 945556007658 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 945556007659 N-acetyl-D-glucosamine binding site [chemical binding]; other site 945556007660 catalytic residue [active] 945556007661 heat shock protein HtpX; Provisional; Region: PRK05457 945556007662 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 945556007663 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 945556007664 Protein export membrane protein; Region: SecD_SecF; cl14618 945556007665 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 945556007666 active site 945556007667 catalytic site [active] 945556007668 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 945556007669 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 945556007670 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 945556007671 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 945556007672 ring oligomerisation interface [polypeptide binding]; other site 945556007673 ATP/Mg binding site [chemical binding]; other site 945556007674 stacking interactions; other site 945556007675 hinge regions; other site 945556007676 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 945556007677 oligomerisation interface [polypeptide binding]; other site 945556007678 mobile loop; other site 945556007679 roof hairpin; other site 945556007680 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 945556007681 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 945556007682 putative active site [active] 945556007683 putative metal binding site [ion binding]; other site 945556007684 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 945556007685 active site 945556007686 metal binding site [ion binding]; metal-binding site 945556007687 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 945556007688 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 945556007689 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 945556007690 active site 945556007691 substrate-binding site [chemical binding]; other site 945556007692 metal-binding site [ion binding] 945556007693 GTP binding site [chemical binding]; other site 945556007694 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 945556007695 glycerol kinase; Provisional; Region: glpK; PRK00047 945556007696 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 945556007697 N- and C-terminal domain interface [polypeptide binding]; other site 945556007698 active site 945556007699 MgATP binding site [chemical binding]; other site 945556007700 catalytic site [active] 945556007701 metal binding site [ion binding]; metal-binding site 945556007702 glycerol binding site [chemical binding]; other site 945556007703 homotetramer interface [polypeptide binding]; other site 945556007704 homodimer interface [polypeptide binding]; other site 945556007705 FBP binding site [chemical binding]; other site 945556007706 protein IIAGlc interface [polypeptide binding]; other site 945556007707 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 945556007708 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 945556007709 putative substrate translocation pore; other site 945556007710 Predicted methyltransferase [General function prediction only]; Region: COG3897 945556007711 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 945556007712 S-adenosylmethionine binding site [chemical binding]; other site 945556007713 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14192 945556007714 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 945556007715 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 945556007716 homodimer interface [polypeptide binding]; other site 945556007717 NADP binding site [chemical binding]; other site 945556007718 substrate binding site [chemical binding]; other site 945556007719 PhoD-like phosphatase; Region: PhoD; pfam09423 945556007720 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 945556007721 putative active site [active] 945556007722 putative metal binding site [ion binding]; other site 945556007723 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 945556007724 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 945556007725 dihydropteroate synthase; Region: DHPS; TIGR01496 945556007726 substrate binding pocket [chemical binding]; other site 945556007727 dimer interface [polypeptide binding]; other site 945556007728 inhibitor binding site; inhibition site 945556007729 FtsH Extracellular; Region: FtsH_ext; pfam06480 945556007730 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 945556007731 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 945556007732 Walker A motif; other site 945556007733 ATP binding site [chemical binding]; other site 945556007734 Walker B motif; other site 945556007735 arginine finger; other site 945556007736 Peptidase family M41; Region: Peptidase_M41; pfam01434 945556007737 FtsJ-like methyltransferase; Region: FtsJ; cl17430 945556007738 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 945556007739 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 945556007740 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 945556007741 putative heme binding site [chemical binding]; other site 945556007742 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 945556007743 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 945556007744 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 945556007745 catalytic site [active] 945556007746 subunit interface [polypeptide binding]; other site 945556007747 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 945556007748 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 945556007749 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 945556007750 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 945556007751 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 945556007752 ATP-grasp domain; Region: ATP-grasp_4; cl17255 945556007753 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 945556007754 IMP binding site; other site 945556007755 dimer interface [polypeptide binding]; other site 945556007756 interdomain contacts; other site 945556007757 partial ornithine binding site; other site 945556007758 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 945556007759 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 945556007760 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 945556007761 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 945556007762 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 945556007763 trimer interface [polypeptide binding]; other site 945556007764 active site 945556007765 substrate binding site [chemical binding]; other site 945556007766 CoA binding site [chemical binding]; other site 945556007767 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 945556007768 Ligand Binding Site [chemical binding]; other site 945556007769 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 945556007770 DNA binding site [nucleotide binding] 945556007771 active site 945556007772 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 945556007773 active site 945556007774 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 945556007775 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 945556007776 putative active site [active] 945556007777 putative metal binding site [ion binding]; other site 945556007778 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 945556007779 Predicted metalloprotease [General function prediction only]; Region: COG2321 945556007780 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 945556007781 Protein of unknown function (DUF808); Region: DUF808; pfam05661 945556007782 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 945556007783 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 945556007784 active site 945556007785 HIGH motif; other site 945556007786 dimer interface [polypeptide binding]; other site 945556007787 KMSKS motif; other site 945556007788 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 945556007789 CoA binding domain; Region: CoA_binding; smart00881 945556007790 CoA-ligase; Region: Ligase_CoA; pfam00549 945556007791 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 945556007792 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 945556007793 CoA-ligase; Region: Ligase_CoA; pfam00549 945556007794 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 945556007795 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 945556007796 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 945556007797 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 945556007798 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 945556007799 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 945556007800 E3 interaction surface; other site 945556007801 lipoyl attachment site [posttranslational modification]; other site 945556007802 e3 binding domain; Region: E3_binding; pfam02817 945556007803 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 945556007804 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 945556007805 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 945556007806 TPP-binding site [chemical binding]; other site 945556007807 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 945556007808 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 945556007809 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 945556007810 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 945556007811 L-aspartate oxidase; Provisional; Region: PRK06175 945556007812 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 945556007813 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 945556007814 SdhC subunit interface [polypeptide binding]; other site 945556007815 proximal heme binding site [chemical binding]; other site 945556007816 cardiolipin binding site; other site 945556007817 Iron-sulfur protein interface; other site 945556007818 proximal quinone binding site [chemical binding]; other site 945556007819 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 945556007820 proximal quinone binding site [chemical binding]; other site 945556007821 SdhD (CybS) interface [polypeptide binding]; other site 945556007822 proximal heme binding site [chemical binding]; other site 945556007823 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 945556007824 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 945556007825 dimer interface [polypeptide binding]; other site 945556007826 active site 945556007827 citrylCoA binding site [chemical binding]; other site 945556007828 NADH binding [chemical binding]; other site 945556007829 cationic pore residues; other site 945556007830 oxalacetate/citrate binding site [chemical binding]; other site 945556007831 coenzyme A binding site [chemical binding]; other site 945556007832 catalytic triad [active] 945556007833 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 945556007834 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 945556007835 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 945556007836 active site residue [active] 945556007837 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 945556007838 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 945556007839 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 945556007840 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 945556007841 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 945556007842 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 945556007843 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 945556007844 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 945556007845 DNA binding residues [nucleotide binding] 945556007846 Protein of unknown function (DUF493); Region: DUF493; pfam04359 945556007847 lipoate-protein ligase B; Provisional; Region: PRK14342 945556007848 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 945556007849 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 945556007850 putative active site [active] 945556007851 metal binding site [ion binding]; metal-binding site 945556007852 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 945556007853 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 945556007854 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 945556007855 Predicted transcriptional regulators [Transcription]; Region: COG1733 945556007856 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 945556007857 dimerization interface [polypeptide binding]; other site 945556007858 putative DNA binding site [nucleotide binding]; other site 945556007859 putative Zn2+ binding site [ion binding]; other site 945556007860 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 945556007861 siroheme synthase; Provisional; Region: cysG; PRK10637 945556007862 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 945556007863 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 945556007864 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 945556007865 active site 945556007866 SAM binding site [chemical binding]; other site 945556007867 homodimer interface [polypeptide binding]; other site 945556007868 seryl-tRNA synthetase; Provisional; Region: PRK05431 945556007869 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 945556007870 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 945556007871 dimer interface [polypeptide binding]; other site 945556007872 active site 945556007873 motif 1; other site 945556007874 motif 2; other site 945556007875 motif 3; other site 945556007876 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 945556007877 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 945556007878 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 945556007879 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 945556007880 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 945556007881 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 945556007882 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 945556007883 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 945556007884 substrate binding pocket [chemical binding]; other site 945556007885 chain length determination region; other site 945556007886 substrate-Mg2+ binding site; other site 945556007887 catalytic residues [active] 945556007888 aspartate-rich region 1; other site 945556007889 active site lid residues [active] 945556007890 aspartate-rich region 2; other site 945556007891 Site-specific recombinase; Region: SpecificRecomb; pfam10136 945556007892 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 945556007893 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 945556007894 active site 945556007895 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 945556007896 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 945556007897 HlyD family secretion protein; Region: HlyD_3; pfam13437 945556007898 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 945556007899 Protein export membrane protein; Region: SecD_SecF; cl14618 945556007900 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 945556007901 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 945556007902 Uncharacterized conserved protein [Function unknown]; Region: COG0393 945556007903 SnoaL-like domain; Region: SnoaL_4; pfam13577 945556007904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556007905 short chain dehydrogenase; Provisional; Region: PRK06181 945556007906 NAD(P) binding site [chemical binding]; other site 945556007907 active site 945556007908 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 945556007909 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 945556007910 HIGH motif; other site 945556007911 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 945556007912 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 945556007913 active site 945556007914 KMSKS motif; other site 945556007915 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 945556007916 tRNA binding surface [nucleotide binding]; other site 945556007917 anticodon binding site; other site 945556007918 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 945556007919 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 945556007920 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 945556007921 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 945556007922 G2 box; other site 945556007923 Switch I region; other site 945556007924 G3 box; other site 945556007925 Switch II region; other site 945556007926 G4 box; other site 945556007927 TIR domain; Region: TIR_2; pfam13676 945556007928 Predicted permeases [General function prediction only]; Region: COG0679 945556007929 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556007930 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 945556007931 putative DNA binding site [nucleotide binding]; other site 945556007932 putative Zn2+ binding site [ion binding]; other site 945556007933 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 945556007934 dimerization interface [polypeptide binding]; other site 945556007935 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 945556007936 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 945556007937 active site 945556007938 sensor protein QseC; Provisional; Region: PRK10337 945556007939 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 945556007940 dimer interface [polypeptide binding]; other site 945556007941 phosphorylation site [posttranslational modification] 945556007942 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 945556007943 ATP binding site [chemical binding]; other site 945556007944 Mg2+ binding site [ion binding]; other site 945556007945 G-X-G motif; other site 945556007946 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 945556007947 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 945556007948 active site 945556007949 phosphorylation site [posttranslational modification] 945556007950 intermolecular recognition site; other site 945556007951 dimerization interface [polypeptide binding]; other site 945556007952 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 945556007953 DNA binding site [nucleotide binding] 945556007954 putative metal dependent hydrolase; Provisional; Region: PRK11598 945556007955 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 945556007956 Sulfatase; Region: Sulfatase; pfam00884 945556007957 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 945556007958 muropeptide transporter; Validated; Region: ampG; cl17669 945556007959 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 945556007960 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 945556007961 putative acyl-acceptor binding pocket; other site 945556007962 hypothetical protein; Provisional; Region: PRK10279 945556007963 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 945556007964 nucleophile elbow; other site 945556007965 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 945556007966 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 945556007967 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 945556007968 Protein of unknown function (DUF419); Region: DUF419; cl15265 945556007969 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 945556007970 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 945556007971 substrate binding pocket [chemical binding]; other site 945556007972 chain length determination region; other site 945556007973 substrate-Mg2+ binding site; other site 945556007974 catalytic residues [active] 945556007975 aspartate-rich region 1; other site 945556007976 active site lid residues [active] 945556007977 aspartate-rich region 2; other site 945556007978 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 945556007979 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 945556007980 chaperone protein HchA; Provisional; Region: PRK04155 945556007981 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 945556007982 conserved cys residue [active] 945556007983 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 945556007984 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 945556007985 NAD(P) binding site [chemical binding]; other site 945556007986 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 945556007987 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556007988 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 945556007989 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556007990 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 945556007991 Mrr N-terminal domain; Region: Mrr_N; pfam14338 945556007992 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 945556007993 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 945556007994 Fatty acid desaturase; Region: FA_desaturase; pfam00487 945556007995 putative di-iron ligands [ion binding]; other site 945556007996 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 945556007997 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 945556007998 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 945556007999 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556008000 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 945556008001 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 945556008002 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 945556008003 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 945556008004 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 945556008005 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 945556008006 Active Sites [active] 945556008007 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 945556008008 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 945556008009 ribonuclease G; Provisional; Region: PRK11712 945556008010 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 945556008011 homodimer interface [polypeptide binding]; other site 945556008012 oligonucleotide binding site [chemical binding]; other site 945556008013 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 945556008014 active site 945556008015 dimer interface [polypeptide binding]; other site 945556008016 rod shape-determining protein MreC; Provisional; Region: PRK13922 945556008017 rod shape-determining protein MreC; Region: MreC; pfam04085 945556008018 rod shape-determining protein MreB; Provisional; Region: PRK13927 945556008019 MreB and similar proteins; Region: MreB_like; cd10225 945556008020 nucleotide binding site [chemical binding]; other site 945556008021 Mg binding site [ion binding]; other site 945556008022 putative protofilament interaction site [polypeptide binding]; other site 945556008023 RodZ interaction site [polypeptide binding]; other site 945556008024 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 945556008025 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 945556008026 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 945556008027 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 945556008028 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 945556008029 GatB domain; Region: GatB_Yqey; smart00845 945556008030 intracellular protease, PfpI family; Region: PfpI; TIGR01382 945556008031 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 945556008032 conserved cys residue [active] 945556008033 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 945556008034 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 945556008035 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 945556008036 active site 945556008037 Zn binding site [ion binding]; other site 945556008038 microcin B17 transporter; Reviewed; Region: PRK11098 945556008039 threonine dehydratase; Provisional; Region: PRK07334 945556008040 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 945556008041 tetramer interface [polypeptide binding]; other site 945556008042 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556008043 catalytic residue [active] 945556008044 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 945556008045 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 945556008046 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 945556008047 active site 945556008048 nucleophile elbow; other site 945556008049 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 945556008050 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 945556008051 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 945556008052 putative FMN binding site [chemical binding]; other site 945556008053 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 945556008054 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 945556008055 putative substrate translocation pore; other site 945556008056 TIGR01666 family membrane protein; Region: YCCS 945556008057 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 945556008058 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 945556008059 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 945556008060 YcxB-like protein; Region: YcxB; pfam14317 945556008061 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 945556008062 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 945556008063 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 945556008064 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 945556008065 Flavodoxin; Region: Flavodoxin_1; pfam00258 945556008066 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 945556008067 FAD binding pocket [chemical binding]; other site 945556008068 FAD binding motif [chemical binding]; other site 945556008069 catalytic residues [active] 945556008070 NAD binding pocket [chemical binding]; other site 945556008071 phosphate binding motif [ion binding]; other site 945556008072 beta-alpha-beta structure motif; other site 945556008073 Uncharacterized conserved protein [Function unknown]; Region: COG1434 945556008074 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 945556008075 putative active site [active] 945556008076 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 945556008077 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 945556008078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 945556008079 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 945556008080 Predicted small secreted protein [Function unknown]; Region: COG5510 945556008081 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 945556008082 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 945556008083 metal binding site [ion binding]; metal-binding site 945556008084 dimer interface [polypeptide binding]; other site 945556008085 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 945556008086 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 945556008087 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 945556008088 putative binding surface; other site 945556008089 active site 945556008090 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 945556008091 putative binding surface; other site 945556008092 active site 945556008093 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 945556008094 putative binding surface; other site 945556008095 active site 945556008096 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 945556008097 putative binding surface; other site 945556008098 active site 945556008099 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 945556008100 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 945556008101 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 945556008102 ATP binding site [chemical binding]; other site 945556008103 Mg2+ binding site [ion binding]; other site 945556008104 G-X-G motif; other site 945556008105 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 945556008106 Response regulator receiver domain; Region: Response_reg; pfam00072 945556008107 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 945556008108 active site 945556008109 phosphorylation site [posttranslational modification] 945556008110 intermolecular recognition site; other site 945556008111 dimerization interface [polypeptide binding]; other site 945556008112 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 945556008113 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 945556008114 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 945556008115 dimer interface [polypeptide binding]; other site 945556008116 putative CheW interface [polypeptide binding]; other site 945556008117 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 945556008118 Response regulator receiver domain; Region: Response_reg; pfam00072 945556008119 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 945556008120 active site 945556008121 phosphorylation site [posttranslational modification] 945556008122 intermolecular recognition site; other site 945556008123 dimerization interface [polypeptide binding]; other site 945556008124 Response regulator receiver domain; Region: Response_reg; pfam00072 945556008125 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 945556008126 active site 945556008127 phosphorylation site [posttranslational modification] 945556008128 intermolecular recognition site; other site 945556008129 dimerization interface [polypeptide binding]; other site 945556008130 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 945556008131 HlyD family secretion protein; Region: HlyD_3; pfam13437 945556008132 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 945556008133 prolyl-tRNA synthetase; Provisional; Region: PRK09194 945556008134 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 945556008135 dimer interface [polypeptide binding]; other site 945556008136 motif 1; other site 945556008137 active site 945556008138 motif 2; other site 945556008139 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 945556008140 putative deacylase active site [active] 945556008141 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 945556008142 active site 945556008143 motif 3; other site 945556008144 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 945556008145 anticodon binding site; other site 945556008146 Uncharacterized conserved protein [Function unknown]; Region: COG3422 945556008147 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 945556008148 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 945556008149 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 945556008150 PhnA protein; Region: PhnA; pfam03831 945556008151 Uncharacterized conserved protein [Function unknown]; Region: COG3189 945556008152 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 945556008153 putative hydrophobic ligand binding site [chemical binding]; other site 945556008154 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 945556008155 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 945556008156 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 945556008157 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 945556008158 dimerization domain [polypeptide binding]; other site 945556008159 dimer interface [polypeptide binding]; other site 945556008160 catalytic residues [active] 945556008161 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 945556008162 Sel1-like repeats; Region: SEL1; smart00671 945556008163 Predicted permeases [General function prediction only]; Region: COG0679 945556008164 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 945556008165 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 945556008166 active site 945556008167 FMN binding site [chemical binding]; other site 945556008168 substrate binding site [chemical binding]; other site 945556008169 homotetramer interface [polypeptide binding]; other site 945556008170 catalytic residue [active] 945556008171 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 945556008172 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 945556008173 N-terminal plug; other site 945556008174 ligand-binding site [chemical binding]; other site 945556008175 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 945556008176 active site 945556008177 DNA binding site [nucleotide binding] 945556008178 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 945556008179 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 945556008180 DNA binding site [nucleotide binding] 945556008181 catalytic residue [active] 945556008182 H2TH interface [polypeptide binding]; other site 945556008183 putative catalytic residues [active] 945556008184 turnover-facilitating residue; other site 945556008185 intercalation triad [nucleotide binding]; other site 945556008186 8OG recognition residue [nucleotide binding]; other site 945556008187 putative reading head residues; other site 945556008188 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 945556008189 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 945556008190 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 945556008191 putative active site pocket [active] 945556008192 dimerization interface [polypeptide binding]; other site 945556008193 putative catalytic residue [active] 945556008194 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 945556008195 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 945556008196 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 945556008197 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 945556008198 G1 box; other site 945556008199 putative GEF interaction site [polypeptide binding]; other site 945556008200 GTP/Mg2+ binding site [chemical binding]; other site 945556008201 Switch I region; other site 945556008202 G2 box; other site 945556008203 G3 box; other site 945556008204 Switch II region; other site 945556008205 G4 box; other site 945556008206 G5 box; other site 945556008207 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 945556008208 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 945556008209 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 945556008210 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 945556008211 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 945556008212 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 945556008213 S-adenosylmethionine binding site [chemical binding]; other site 945556008214 lysine transporter; Provisional; Region: PRK10836 945556008215 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 945556008216 hypothetical protein; Reviewed; Region: PRK09588 945556008217 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 945556008218 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 945556008219 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 945556008220 ligand binding site [chemical binding]; other site 945556008221 Type II transport protein GspH; Region: GspH; pfam12019 945556008222 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 945556008223 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 945556008224 dimer interface [polypeptide binding]; other site 945556008225 active site 945556008226 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 945556008227 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 945556008228 dimer interface [polypeptide binding]; other site 945556008229 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 945556008230 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 945556008231 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 945556008232 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 945556008233 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 945556008234 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 945556008235 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 945556008236 Trp docking motif [polypeptide binding]; other site 945556008237 putative active site [active] 945556008238 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 945556008239 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 945556008240 CoA-transferase family III; Region: CoA_transf_3; pfam02515 945556008241 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 945556008242 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 945556008243 dimer interface [polypeptide binding]; other site 945556008244 active site 945556008245 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 945556008246 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 945556008247 substrate binding site [chemical binding]; other site 945556008248 oxyanion hole (OAH) forming residues; other site 945556008249 trimer interface [polypeptide binding]; other site 945556008250 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 945556008251 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 945556008252 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 945556008253 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 945556008254 active site 945556008255 nucleophile elbow; other site 945556008256 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 945556008257 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 945556008258 Methyltransferase domain; Region: Methyltransf_31; pfam13847 945556008259 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 945556008260 S-adenosylmethionine binding site [chemical binding]; other site 945556008261 Haemolysin-III related; Region: HlyIII; cl03831 945556008262 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 945556008263 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 945556008264 metabolite-proton symporter; Region: 2A0106; TIGR00883 945556008265 putative substrate translocation pore; other site 945556008266 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 945556008267 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 945556008268 SEC-C motif; Region: SEC-C; pfam02810 945556008269 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 945556008270 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 945556008271 dimer interface [polypeptide binding]; other site 945556008272 decamer (pentamer of dimers) interface [polypeptide binding]; other site 945556008273 catalytic triad [active] 945556008274 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 945556008275 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 945556008276 active site 945556008277 catalytic residues [active] 945556008278 Sporulation related domain; Region: SPOR; cl10051 945556008279 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 945556008280 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 945556008281 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 945556008282 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 945556008283 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 945556008284 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 945556008285 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 945556008286 substrate binding site [chemical binding]; other site 945556008287 active site 945556008288 catalytic residues [active] 945556008289 heterodimer interface [polypeptide binding]; other site 945556008290 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 945556008291 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 945556008292 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 945556008293 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 945556008294 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 945556008295 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 945556008296 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 945556008297 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 945556008298 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556008299 catalytic residue [active] 945556008300 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 945556008301 active site 945556008302 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 945556008303 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 945556008304 N-terminal plug; other site 945556008305 ligand-binding site [chemical binding]; other site 945556008306 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 945556008307 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 945556008308 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 945556008309 active site 945556008310 catalytic site [active] 945556008311 metal binding site [ion binding]; metal-binding site 945556008312 META domain; Region: META; pfam03724 945556008313 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 945556008314 Fatty acid desaturase; Region: FA_desaturase; pfam00487 945556008315 Di-iron ligands [ion binding]; other site 945556008316 Uncharacterized conserved protein [Function unknown]; Region: COG0397 945556008317 hypothetical protein; Validated; Region: PRK00029 945556008318 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 945556008319 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 945556008320 active site 945556008321 phosphorylation site [posttranslational modification] 945556008322 intermolecular recognition site; other site 945556008323 dimerization interface [polypeptide binding]; other site 945556008324 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 945556008325 DNA binding site [nucleotide binding] 945556008326 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 945556008327 dimerization interface [polypeptide binding]; other site 945556008328 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 945556008329 dimer interface [polypeptide binding]; other site 945556008330 phosphorylation site [posttranslational modification] 945556008331 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 945556008332 ATP binding site [chemical binding]; other site 945556008333 Mg2+ binding site [ion binding]; other site 945556008334 G-X-G motif; other site 945556008335 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 945556008336 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 945556008337 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556008338 active site 945556008339 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 945556008340 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 945556008341 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 945556008342 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556008343 active site 945556008344 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 945556008345 Predicted membrane protein [Function unknown]; Region: COG3223 945556008346 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 945556008347 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_1; cd09129 945556008348 putative active site [active] 945556008349 putative catalytic site [active] 945556008350 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_2; cd09130 945556008351 PLD-like domain; Region: PLDc_2; pfam13091 945556008352 putative active site [active] 945556008353 putative catalytic site [active] 945556008354 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 945556008355 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 945556008356 N-terminal plug; other site 945556008357 ligand-binding site [chemical binding]; other site 945556008358 Domain of unknown function (DUF4184); Region: DUF4184; pfam13803 945556008359 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 945556008360 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 945556008361 dimer interface [polypeptide binding]; other site 945556008362 anticodon binding site; other site 945556008363 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 945556008364 homodimer interface [polypeptide binding]; other site 945556008365 motif 1; other site 945556008366 active site 945556008367 motif 2; other site 945556008368 GAD domain; Region: GAD; pfam02938 945556008369 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 945556008370 active site 945556008371 motif 3; other site 945556008372 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 945556008373 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 945556008374 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 945556008375 active site 945556008376 homodimer interface [polypeptide binding]; other site 945556008377 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 945556008378 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 945556008379 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 945556008380 putative ADP-binding pocket [chemical binding]; other site 945556008381 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 945556008382 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 945556008383 putative metal binding site; other site 945556008384 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 945556008385 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 945556008386 putative active site [active] 945556008387 putative metal binding site [ion binding]; other site 945556008388 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 945556008389 phosphorylation site [posttranslational modification] 945556008390 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 945556008391 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 945556008392 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 945556008393 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 945556008394 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 945556008395 homodimer interface [polypeptide binding]; other site 945556008396 substrate-cofactor binding pocket; other site 945556008397 catalytic residue [active] 945556008398 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 945556008399 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 945556008400 metal binding triad; other site 945556008401 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 945556008402 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 945556008403 metal binding triad; other site 945556008404 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 945556008405 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 945556008406 dimer interface [polypeptide binding]; other site 945556008407 phosphorylation site [posttranslational modification] 945556008408 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 945556008409 ATP binding site [chemical binding]; other site 945556008410 Mg2+ binding site [ion binding]; other site 945556008411 G-X-G motif; other site 945556008412 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 945556008413 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 945556008414 LemA family; Region: LemA; cl00742 945556008415 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 945556008416 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 945556008417 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 945556008418 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 945556008419 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 945556008420 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 945556008421 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 945556008422 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 945556008423 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 945556008424 Protein export membrane protein; Region: SecD_SecF; pfam02355 945556008425 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 945556008426 Flavoprotein; Region: Flavoprotein; pfam02441 945556008427 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 945556008428 hypothetical protein; Reviewed; Region: PRK00024 945556008429 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 945556008430 MPN+ (JAMM) motif; other site 945556008431 Zinc-binding site [ion binding]; other site 945556008432 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 945556008433 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 945556008434 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 945556008435 active site 945556008436 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 945556008437 Intracellular septation protein A; Region: IspA; pfam04279 945556008438 YciI-like protein; Reviewed; Region: PRK11370 945556008439 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 945556008440 Uncharacterized conserved protein [Function unknown]; Region: COG4121 945556008441 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 945556008442 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 945556008443 active site residue [active] 945556008444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 945556008445 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 945556008446 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 945556008447 CoenzymeA binding site [chemical binding]; other site 945556008448 subunit interaction site [polypeptide binding]; other site 945556008449 PHB binding site; other site 945556008450 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 945556008451 thioredoxin 2; Provisional; Region: PRK10996 945556008452 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 945556008453 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 945556008454 catalytic residues [active] 945556008455 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 945556008456 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 945556008457 Putative phosphatase (DUF442); Region: DUF442; cl17385 945556008458 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 945556008459 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 945556008460 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 945556008461 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 945556008462 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 945556008463 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 945556008464 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 945556008465 metal binding site [ion binding]; metal-binding site 945556008466 active site 945556008467 I-site; other site 945556008468 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 945556008469 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 945556008470 ligand binding site [chemical binding]; other site 945556008471 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 945556008472 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 945556008473 putative active site [active] 945556008474 putative metal binding site [ion binding]; other site 945556008475 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 945556008476 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 945556008477 putative active site [active] 945556008478 catalytic site [active] 945556008479 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 945556008480 putative active site [active] 945556008481 catalytic site [active] 945556008482 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 945556008483 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 945556008484 putative acyl-acceptor binding pocket; other site 945556008485 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 945556008486 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 945556008487 HflX GTPase family; Region: HflX; cd01878 945556008488 G1 box; other site 945556008489 GTP/Mg2+ binding site [chemical binding]; other site 945556008490 Switch I region; other site 945556008491 G2 box; other site 945556008492 G3 box; other site 945556008493 Switch II region; other site 945556008494 G4 box; other site 945556008495 G5 box; other site 945556008496 LrgB-like family; Region: LrgB; cl00596 945556008497 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 945556008498 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 945556008499 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 945556008500 active site 945556008501 metal binding site [ion binding]; metal-binding site 945556008502 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 945556008503 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 945556008504 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 945556008505 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 945556008506 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 945556008507 23S rRNA interface [nucleotide binding]; other site 945556008508 L3 interface [polypeptide binding]; other site 945556008509 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 945556008510 stringent starvation protein A; Provisional; Region: sspA; PRK09481 945556008511 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 945556008512 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 945556008513 dimer interface [polypeptide binding]; other site 945556008514 N-terminal domain interface [polypeptide binding]; other site 945556008515 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 945556008516 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 945556008517 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 945556008518 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 945556008519 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 945556008520 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 945556008521 carboxyltransferase (CT) interaction site; other site 945556008522 biotinylation site [posttranslational modification]; other site 945556008523 enoyl-CoA hydratase; Provisional; Region: PRK05995 945556008524 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 945556008525 substrate binding site [chemical binding]; other site 945556008526 oxyanion hole (OAH) forming residues; other site 945556008527 trimer interface [polypeptide binding]; other site 945556008528 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 945556008529 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556008530 active site 945556008531 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 945556008532 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 945556008533 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 945556008534 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 945556008535 NAD(P) binding site [chemical binding]; other site 945556008536 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 945556008537 substrate binding site [chemical binding]; other site 945556008538 homotetramer interface [polypeptide binding]; other site 945556008539 active site 945556008540 homodimer interface [polypeptide binding]; other site 945556008541 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 945556008542 RUN domain; Region: RUN; cl02689 945556008543 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556008544 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556008545 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 945556008546 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556008547 active site 945556008548 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 945556008549 Uncharacterized conserved protein [Function unknown]; Region: COG3791 945556008550 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 945556008551 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 945556008552 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 945556008553 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 945556008554 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 945556008555 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 945556008556 malate dehydrogenase; Provisional; Region: PRK05442 945556008557 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 945556008558 NAD(P) binding site [chemical binding]; other site 945556008559 dimer interface [polypeptide binding]; other site 945556008560 malate binding site [chemical binding]; other site 945556008561 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 945556008562 B1 nucleotide binding pocket [chemical binding]; other site 945556008563 B2 nucleotide binding pocket [chemical binding]; other site 945556008564 CAS motifs; other site 945556008565 active site 945556008566 lytic murein transglycosylase; Provisional; Region: PRK11619 945556008567 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 945556008568 N-acetyl-D-glucosamine binding site [chemical binding]; other site 945556008569 catalytic residue [active] 945556008570 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 945556008571 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 945556008572 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 945556008573 FeS/SAM binding site; other site 945556008574 TRAM domain; Region: TRAM; cl01282 945556008575 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 945556008576 PhoH-like protein; Region: PhoH; pfam02562 945556008577 metal-binding heat shock protein; Provisional; Region: PRK00016 945556008578 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 945556008579 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 945556008580 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 945556008581 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 945556008582 active site 945556008583 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 945556008584 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 945556008585 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 945556008586 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 945556008587 EamA-like transporter family; Region: EamA; pfam00892 945556008588 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 945556008589 Helix-turn-helix domain; Region: HTH_18; pfam12833 945556008590 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556008591 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 945556008592 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 945556008593 YcxB-like protein; Region: YcxB; pfam14317 945556008594 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 945556008595 dimer interface [polypeptide binding]; other site 945556008596 FMN binding site [chemical binding]; other site 945556008597 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 945556008598 ribonuclease R; Region: RNase_R; TIGR02063 945556008599 RNB domain; Region: RNB; pfam00773 945556008600 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 945556008601 RNA binding site [nucleotide binding]; other site 945556008602 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 945556008603 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 945556008604 active site 945556008605 Zn binding site [ion binding]; other site 945556008606 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 945556008607 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 945556008608 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 945556008609 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 945556008610 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 945556008611 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556008612 active site 945556008613 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 945556008614 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 945556008615 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 945556008616 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 945556008617 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 945556008618 alphaNTD homodimer interface [polypeptide binding]; other site 945556008619 alphaNTD - beta interaction site [polypeptide binding]; other site 945556008620 alphaNTD - beta' interaction site [polypeptide binding]; other site 945556008621 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 945556008622 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 945556008623 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 945556008624 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 945556008625 RNA binding surface [nucleotide binding]; other site 945556008626 30S ribosomal protein S11; Validated; Region: PRK05309 945556008627 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 945556008628 30S ribosomal protein S13; Region: bact_S13; TIGR03631 945556008629 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 945556008630 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 945556008631 SecY translocase; Region: SecY; pfam00344 945556008632 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 945556008633 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 945556008634 23S rRNA binding site [nucleotide binding]; other site 945556008635 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 945556008636 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 945556008637 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 945556008638 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 945556008639 5S rRNA interface [nucleotide binding]; other site 945556008640 23S rRNA interface [nucleotide binding]; other site 945556008641 L5 interface [polypeptide binding]; other site 945556008642 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 945556008643 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 945556008644 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 945556008645 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 945556008646 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 945556008647 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 945556008648 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 945556008649 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 945556008650 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 945556008651 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 945556008652 RNA binding site [nucleotide binding]; other site 945556008653 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 945556008654 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 945556008655 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 945556008656 23S rRNA interface [nucleotide binding]; other site 945556008657 putative translocon interaction site; other site 945556008658 signal recognition particle (SRP54) interaction site; other site 945556008659 L23 interface [polypeptide binding]; other site 945556008660 trigger factor interaction site; other site 945556008661 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 945556008662 23S rRNA interface [nucleotide binding]; other site 945556008663 5S rRNA interface [nucleotide binding]; other site 945556008664 putative antibiotic binding site [chemical binding]; other site 945556008665 L25 interface [polypeptide binding]; other site 945556008666 L27 interface [polypeptide binding]; other site 945556008667 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 945556008668 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 945556008669 G-X-X-G motif; other site 945556008670 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 945556008671 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 945556008672 putative translocon binding site; other site 945556008673 protein-rRNA interface [nucleotide binding]; other site 945556008674 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 945556008675 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 945556008676 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 945556008677 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 945556008678 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 945556008679 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 945556008680 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 945556008681 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 945556008682 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 945556008683 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 945556008684 catalytic triad [active] 945556008685 cystathionine beta-lyase; Provisional; Region: PRK07050 945556008686 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 945556008687 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 945556008688 catalytic residue [active] 945556008689 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 945556008690 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 945556008691 Walker A motif; other site 945556008692 ATP binding site [chemical binding]; other site 945556008693 Walker B motif; other site 945556008694 Zonular occludens toxin (Zot); Region: Zot; cl17485 945556008695 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 945556008696 heme-binding site [chemical binding]; other site 945556008697 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 945556008698 FAD binding pocket [chemical binding]; other site 945556008699 conserved FAD binding motif [chemical binding]; other site 945556008700 phosphate binding motif [ion binding]; other site 945556008701 Transcriptional regulator; Region: Rrf2; cl17282 945556008702 Rrf2 family protein; Region: rrf2_super; TIGR00738 945556008703 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 945556008704 G1 box; other site 945556008705 GTP/Mg2+ binding site [chemical binding]; other site 945556008706 Switch I region; other site 945556008707 G2 box; other site 945556008708 G3 box; other site 945556008709 Switch II region; other site 945556008710 G4 box; other site 945556008711 G5 box; other site 945556008712 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 945556008713 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 945556008714 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 945556008715 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 945556008716 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 945556008717 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 945556008718 active site 945556008719 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 945556008720 catalytic triad [active] 945556008721 dimer interface [polypeptide binding]; other site 945556008722 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 945556008723 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 945556008724 putative acyl-acceptor binding pocket; other site 945556008725 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 945556008726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556008727 NADH(P)-binding; Region: NAD_binding_10; pfam13460 945556008728 NAD(P) binding site [chemical binding]; other site 945556008729 active site 945556008730 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 945556008731 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 945556008732 ssDNA binding site; other site 945556008733 generic binding surface II; other site 945556008734 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 945556008735 ATP binding site [chemical binding]; other site 945556008736 putative Mg++ binding site [ion binding]; other site 945556008737 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 945556008738 nucleotide binding region [chemical binding]; other site 945556008739 ATP-binding site [chemical binding]; other site 945556008740 comF family protein; Region: comF; TIGR00201 945556008741 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 945556008742 active site 945556008743 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_31; cd04690 945556008744 nudix motif; other site 945556008745 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 945556008746 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 945556008747 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 945556008748 Cl binding site [ion binding]; other site 945556008749 oligomer interface [polypeptide binding]; other site 945556008750 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 945556008751 anti sigma factor interaction site; other site 945556008752 regulatory phosphorylation site [posttranslational modification]; other site 945556008753 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 945556008754 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 945556008755 mce related protein; Region: MCE; pfam02470 945556008756 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 945556008757 Permease; Region: Permease; cl00510 945556008758 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 945556008759 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 945556008760 Walker A/P-loop; other site 945556008761 ATP binding site [chemical binding]; other site 945556008762 Q-loop/lid; other site 945556008763 ABC transporter signature motif; other site 945556008764 Walker B; other site 945556008765 D-loop; other site 945556008766 H-loop/switch region; other site 945556008767 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 945556008768 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 945556008769 ATP binding site [chemical binding]; other site 945556008770 Mg++ binding site [ion binding]; other site 945556008771 motif III; other site 945556008772 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 945556008773 nucleotide binding region [chemical binding]; other site 945556008774 ATP-binding site [chemical binding]; other site 945556008775 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 945556008776 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 945556008777 active site 945556008778 dimerization interface [polypeptide binding]; other site 945556008779 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 945556008780 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 945556008781 TPP-binding site; other site 945556008782 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 945556008783 PYR/PP interface [polypeptide binding]; other site 945556008784 dimer interface [polypeptide binding]; other site 945556008785 TPP binding site [chemical binding]; other site 945556008786 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 945556008787 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 945556008788 dimerization interface [polypeptide binding]; other site 945556008789 active site 945556008790 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 945556008791 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 945556008792 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 945556008793 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 945556008794 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 945556008795 shikimate binding site; other site 945556008796 NAD(P) binding site [chemical binding]; other site 945556008797 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 945556008798 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 945556008799 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 945556008800 active site 945556008801 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 945556008802 hypothetical protein; Provisional; Region: PRK11615 945556008803 PspC domain; Region: PspC; pfam04024 945556008804 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 945556008805 HPP family; Region: HPP; pfam04982 945556008806 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 945556008807 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 945556008808 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 945556008809 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 945556008810 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 945556008811 FeS/SAM binding site; other site 945556008812 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 945556008813 Major Facilitator Superfamily; Region: MFS_1; pfam07690 945556008814 putative substrate translocation pore; other site 945556008815 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 945556008816 dimer interface [polypeptide binding]; other site 945556008817 motif 1; other site 945556008818 active site 945556008819 motif 2; other site 945556008820 motif 3; other site 945556008821 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 945556008822 YCII-related domain; Region: YCII; cl00999 945556008823 EamA-like transporter family; Region: EamA; pfam00892 945556008824 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 945556008825 EamA-like transporter family; Region: EamA; pfam00892 945556008826 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556008827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556008828 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 945556008829 dimerization interface [polypeptide binding]; other site 945556008830 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 945556008831 active site 945556008832 catalytic residues [active] 945556008833 hypothetical protein; Provisional; Region: PRK12472 945556008834 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 945556008835 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 945556008836 putative active site [active] 945556008837 Zn binding site [ion binding]; other site 945556008838 succinylarginine dihydrolase; Provisional; Region: PRK13281 945556008839 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 945556008840 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 945556008841 NAD(P) binding site [chemical binding]; other site 945556008842 catalytic residues [active] 945556008843 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 945556008844 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 945556008845 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 945556008846 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 945556008847 inhibitor-cofactor binding pocket; inhibition site 945556008848 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556008849 catalytic residue [active] 945556008850 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 945556008851 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 945556008852 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 945556008853 NAD(P) binding site [chemical binding]; other site 945556008854 S-methylmethionine transporter; Provisional; Region: PRK11387 945556008855 Methyltransferase domain; Region: Methyltransf_23; pfam13489 945556008856 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 945556008857 S-adenosylmethionine binding site [chemical binding]; other site 945556008858 Endonuclease related to archaeal Holliday junction resolvase; Region: Endonuc_Holl; cl01958 945556008859 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 945556008860 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 945556008861 Magnesium ion binding site [ion binding]; other site 945556008862 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 945556008863 Domain of unknown function DUF20; Region: UPF0118; pfam01594 945556008864 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 945556008865 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 945556008866 E-class dimer interface [polypeptide binding]; other site 945556008867 P-class dimer interface [polypeptide binding]; other site 945556008868 active site 945556008869 Cu2+ binding site [ion binding]; other site 945556008870 Zn2+ binding site [ion binding]; other site 945556008871 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 945556008872 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 945556008873 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 945556008874 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 945556008875 putative substrate translocation pore; other site 945556008876 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 945556008877 Uncharacterized conserved protein [Function unknown]; Region: COG1359 945556008878 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 945556008879 FAD binding domain; Region: FAD_binding_4; pfam01565 945556008880 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 945556008881 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 945556008882 ligand binding site [chemical binding]; other site 945556008883 NAD binding site [chemical binding]; other site 945556008884 tetramer interface [polypeptide binding]; other site 945556008885 catalytic site [active] 945556008886 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 945556008887 L-serine binding site [chemical binding]; other site 945556008888 ACT domain interface; other site 945556008889 threonine and homoserine efflux system; Provisional; Region: PRK10532 945556008890 EamA-like transporter family; Region: EamA; pfam00892 945556008891 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 945556008892 Hemerythrin-like domain; Region: Hr-like; cd12108 945556008893 hypothetical protein; Provisional; Region: PRK10621 945556008894 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 945556008895 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 945556008896 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 945556008897 RNA binding site [nucleotide binding]; other site 945556008898 active site 945556008899 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 945556008900 lipase chaperone; Provisional; Region: PRK01294 945556008901 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 945556008902 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 945556008903 Putative serine esterase (DUF676); Region: DUF676; pfam05057 945556008904 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 945556008905 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 945556008906 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 945556008907 RimM N-terminal domain; Region: RimM; pfam01782 945556008908 PRC-barrel domain; Region: PRC; pfam05239 945556008909 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 945556008910 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 945556008911 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 945556008912 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 945556008913 von Willebrand factor type A domain; Region: VWA_2; pfam13519 945556008914 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 945556008915 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 945556008916 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 945556008917 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 945556008918 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 945556008919 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 945556008920 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 945556008921 catalytic site [active] 945556008922 G-X2-G-X-G-K; other site 945556008923 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 945556008924 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 945556008925 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 945556008926 Zn2+ binding site [ion binding]; other site 945556008927 Mg2+ binding site [ion binding]; other site 945556008928 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 945556008929 synthetase active site [active] 945556008930 NTP binding site [chemical binding]; other site 945556008931 metal binding site [ion binding]; metal-binding site 945556008932 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 945556008933 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 945556008934 ACT domain; Region: ACT_4; pfam13291 945556008935 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 945556008936 homotrimer interaction site [polypeptide binding]; other site 945556008937 putative active site [active] 945556008938 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 945556008939 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 945556008940 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 945556008941 heme binding site [chemical binding]; other site 945556008942 ferroxidase pore; other site 945556008943 ferroxidase diiron center [ion binding]; other site 945556008944 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 945556008945 O-Antigen ligase; Region: Wzy_C; pfam04932 945556008946 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 945556008947 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 945556008948 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 945556008949 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 945556008950 Pilin (bacterial filament); Region: Pilin; pfam00114 945556008951 Repair protein; Region: Repair_PSII; pfam04536 945556008952 Repair protein; Region: Repair_PSII; pfam04536 945556008953 LemA family; Region: LemA; pfam04011 945556008954 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 945556008955 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 945556008956 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 945556008957 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 945556008958 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 945556008959 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 945556008960 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 945556008961 active site 945556008962 dimer interface [polypeptide binding]; other site 945556008963 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 945556008964 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 945556008965 active site 945556008966 FMN binding site [chemical binding]; other site 945556008967 substrate binding site [chemical binding]; other site 945556008968 3Fe-4S cluster binding site [ion binding]; other site 945556008969 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 945556008970 domain interface; other site 945556008971 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 945556008972 active site 945556008973 dimer interface [polypeptide binding]; other site 945556008974 metal binding site [ion binding]; metal-binding site 945556008975 shikimate kinase; Reviewed; Region: aroK; PRK00131 945556008976 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 945556008977 ADP binding site [chemical binding]; other site 945556008978 magnesium binding site [ion binding]; other site 945556008979 putative shikimate binding site; other site 945556008980 AMIN domain; Region: AMIN; pfam11741 945556008981 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 945556008982 Secretin and TonB N terminus short domain; Region: STN; smart00965 945556008983 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 945556008984 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 945556008985 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 945556008986 Pilus assembly protein, PilP; Region: PilP; pfam04351 945556008987 Pilus assembly protein, PilO; Region: PilO; pfam04350 945556008988 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 945556008989 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 945556008990 Competence protein A; Region: Competence_A; pfam11104 945556008991 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 945556008992 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 945556008993 Transglycosylase; Region: Transgly; pfam00912 945556008994 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 945556008995 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 945556008996 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 945556008997 S-adenosylmethionine binding site [chemical binding]; other site 945556008998 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 945556008999 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 945556009000 Mg++ binding site [ion binding]; other site 945556009001 putative catalytic motif [active] 945556009002 putative substrate binding site [chemical binding]; other site 945556009003 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 945556009004 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 945556009005 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 945556009006 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 945556009007 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 945556009008 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 945556009009 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 945556009010 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 945556009011 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 945556009012 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 945556009013 Cell division protein FtsL; Region: FtsL; pfam04999 945556009014 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 945556009015 MraW methylase family; Region: Methyltransf_5; cl17771 945556009016 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 945556009017 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 945556009018 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 945556009019 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 945556009020 active site 945556009021 HIGH motif; other site 945556009022 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 945556009023 active site 945556009024 KMSKS motif; other site 945556009025 S-methylmethionine transporter; Provisional; Region: PRK11387 945556009026 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 945556009027 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 945556009028 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 945556009029 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 945556009030 HlyD family secretion protein; Region: HlyD_3; pfam13437 945556009031 Outer membrane efflux protein; Region: OEP; pfam02321 945556009032 Outer membrane efflux protein; Region: OEP; pfam02321 945556009033 hypothetical protein; Provisional; Region: PRK10215 945556009034 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 945556009035 Sel1-like repeats; Region: SEL1; smart00671 945556009036 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 945556009037 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 945556009038 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 945556009039 ABC transporter; Region: ABC_tran_2; pfam12848 945556009040 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 945556009041 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 945556009042 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 945556009043 homodimer interface [polypeptide binding]; other site 945556009044 substrate-cofactor binding pocket; other site 945556009045 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556009046 catalytic residue [active] 945556009047 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 945556009048 classical (c) SDRs; Region: SDR_c; cd05233 945556009049 NAD(P) binding site [chemical binding]; other site 945556009050 active site 945556009051 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 945556009052 Sulfate transporter family; Region: Sulfate_transp; pfam00916 945556009053 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 945556009054 active site clefts [active] 945556009055 zinc binding site [ion binding]; other site 945556009056 dimer interface [polypeptide binding]; other site 945556009057 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 945556009058 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 945556009059 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 945556009060 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 945556009061 RNA binding site [nucleotide binding]; other site 945556009062 osmolarity response regulator; Provisional; Region: ompR; PRK09468 945556009063 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 945556009064 active site 945556009065 phosphorylation site [posttranslational modification] 945556009066 intermolecular recognition site; other site 945556009067 dimerization interface [polypeptide binding]; other site 945556009068 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 945556009069 DNA binding site [nucleotide binding] 945556009070 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 945556009071 HAMP domain; Region: HAMP; pfam00672 945556009072 dimerization interface [polypeptide binding]; other site 945556009073 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 945556009074 dimer interface [polypeptide binding]; other site 945556009075 phosphorylation site [posttranslational modification] 945556009076 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 945556009077 ATP binding site [chemical binding]; other site 945556009078 Mg2+ binding site [ion binding]; other site 945556009079 G-X-G motif; other site 945556009080 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 945556009081 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 945556009082 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 945556009083 putative acetyltransferase; Provisional; Region: PRK03624 945556009084 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 945556009085 Coenzyme A binding pocket [chemical binding]; other site 945556009086 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 945556009087 Coenzyme A binding pocket [chemical binding]; other site 945556009088 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 945556009089 putative active site pocket [active] 945556009090 4-fold oligomerization interface [polypeptide binding]; other site 945556009091 metal binding residues [ion binding]; metal-binding site 945556009092 3-fold/trimer interface [polypeptide binding]; other site 945556009093 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 945556009094 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 945556009095 putative active site [active] 945556009096 oxyanion strand; other site 945556009097 catalytic triad [active] 945556009098 Protein of unknown function (DUF805); Region: DUF805; pfam05656 945556009099 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 945556009100 catalytic site [active] 945556009101 putative active site [active] 945556009102 putative substrate binding site [chemical binding]; other site 945556009103 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 945556009104 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 945556009105 catalytic residues [active] 945556009106 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 945556009107 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 945556009108 non-specific DNA binding site [nucleotide binding]; other site 945556009109 salt bridge; other site 945556009110 sequence-specific DNA binding site [nucleotide binding]; other site 945556009111 EamA-like transporter family; Region: EamA; pfam00892 945556009112 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 945556009113 Predicted membrane protein [Function unknown]; Region: COG3671 945556009114 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 945556009115 DNA-binding site [nucleotide binding]; DNA binding site 945556009116 RNA-binding motif; other site 945556009117 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 945556009118 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 945556009119 Phosphotransferase enzyme family; Region: APH; pfam01636 945556009120 putative active site [active] 945556009121 putative substrate binding site [chemical binding]; other site 945556009122 ATP binding site [chemical binding]; other site 945556009123 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 945556009124 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 945556009125 substrate binding site [chemical binding]; other site 945556009126 glutamase interaction surface [polypeptide binding]; other site 945556009127 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 945556009128 Helix-turn-helix domain; Region: HTH_18; pfam12833 945556009129 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556009130 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 945556009131 amphipathic channel; other site 945556009132 Asn-Pro-Ala signature motifs; other site 945556009133 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 945556009134 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 945556009135 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 945556009136 active site 945556009137 substrate binding site [chemical binding]; other site 945556009138 Mg2+ binding site [ion binding]; other site 945556009139 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 945556009140 potassium uptake protein; Region: kup; TIGR00794 945556009141 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 945556009142 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556009143 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 945556009144 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 945556009145 conserved cys residue [active] 945556009146 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 945556009147 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 945556009148 Predicted transcriptional regulators [Transcription]; Region: COG1733 945556009149 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 945556009150 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 945556009151 active site 945556009152 metal binding site [ion binding]; metal-binding site 945556009153 Predicted transcriptional regulators [Transcription]; Region: COG1733 945556009154 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 945556009155 Uncharacterized conserved protein [Function unknown]; Region: COG2128 945556009156 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 945556009157 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556009158 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556009159 Predicted acetyltransferase [General function prediction only]; Region: COG3393 945556009160 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 945556009161 Coenzyme A binding pocket [chemical binding]; other site 945556009162 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 945556009163 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 945556009164 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 945556009165 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 945556009166 active site 945556009167 catalytic tetrad [active] 945556009168 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 945556009169 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 945556009170 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 945556009171 EamA-like transporter family; Region: EamA; pfam00892 945556009172 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556009173 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 945556009174 HlyD family secretion protein; Region: HlyD_3; pfam13437 945556009175 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 945556009176 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556009177 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 945556009178 dimerization interface [polypeptide binding]; other site 945556009179 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 945556009180 Major Facilitator Superfamily; Region: MFS_1; pfam07690 945556009181 putative substrate translocation pore; other site 945556009182 Major Facilitator Superfamily; Region: MFS_1; pfam07690 945556009183 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 945556009184 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 945556009185 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; cl17189 945556009186 Predicted transcriptional regulator [Transcription]; Region: COG2378 945556009187 WYL domain; Region: WYL; pfam13280 945556009188 Uncharacterized conserved protein [Function unknown]; Region: COG3791 945556009189 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 945556009190 S-adenosylmethionine binding site [chemical binding]; other site 945556009191 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 945556009192 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 945556009193 Pirin-related protein [General function prediction only]; Region: COG1741 945556009194 Pirin; Region: Pirin; pfam02678 945556009195 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 945556009196 Isochorismatase family; Region: Isochorismatase; pfam00857 945556009197 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 945556009198 catalytic triad [active] 945556009199 dimer interface [polypeptide binding]; other site 945556009200 conserved cis-peptide bond; other site 945556009201 LysR family transcriptional regulator; Provisional; Region: PRK14997 945556009202 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556009203 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 945556009204 dimerization interface [polypeptide binding]; other site 945556009205 succinic semialdehyde dehydrogenase; Region: PLN02278 945556009206 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 945556009207 tetramerization interface [polypeptide binding]; other site 945556009208 NAD(P) binding site [chemical binding]; other site 945556009209 catalytic residues [active] 945556009210 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 945556009211 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 945556009212 inhibitor-cofactor binding pocket; inhibition site 945556009213 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556009214 catalytic residue [active] 945556009215 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 945556009216 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556009217 DNA-binding site [nucleotide binding]; DNA binding site 945556009218 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 945556009219 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556009220 homodimer interface [polypeptide binding]; other site 945556009221 catalytic residue [active] 945556009222 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 945556009223 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 945556009224 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 945556009225 non-specific DNA binding site [nucleotide binding]; other site 945556009226 salt bridge; other site 945556009227 sequence-specific DNA binding site [nucleotide binding]; other site 945556009228 Cupin domain; Region: Cupin_2; pfam07883 945556009229 AzlC protein; Region: AzlC; cl00570 945556009230 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 945556009231 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 945556009232 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 945556009233 dimer interface [polypeptide binding]; other site 945556009234 ssDNA binding site [nucleotide binding]; other site 945556009235 tetramer (dimer of dimers) interface [polypeptide binding]; other site 945556009236 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 945556009237 Major Facilitator Superfamily; Region: MFS_1; pfam07690 945556009238 putative substrate translocation pore; other site 945556009239 hypothetical protein; Provisional; Region: PRK14013 945556009240 Putative transcription activator [Transcription]; Region: TenA; COG0819 945556009241 GlpM protein; Region: GlpM; pfam06942 945556009242 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 945556009243 2-enoyl thioester reductase (ETR) like proteins, child 2; Region: ETR_like_2; cd08292 945556009244 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 945556009245 putative NAD(P) binding site [chemical binding]; other site 945556009246 putative dimer interface [polypeptide binding]; other site 945556009247 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556009248 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556009249 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 945556009250 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 945556009251 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 945556009252 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 945556009253 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 945556009254 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 945556009255 metal binding site [ion binding]; metal-binding site 945556009256 active site 945556009257 I-site; other site 945556009258 BCCT family transporter; Region: BCCT; cl00569 945556009259 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 945556009260 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 945556009261 Na binding site [ion binding]; other site 945556009262 Protein of unknown function, DUF485; Region: DUF485; pfam04341 945556009263 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 945556009264 Na binding site [ion binding]; other site 945556009265 PAS fold; Region: PAS_7; pfam12860 945556009266 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 945556009267 putative active site [active] 945556009268 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 945556009269 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 945556009270 dimer interface [polypeptide binding]; other site 945556009271 phosphorylation site [posttranslational modification] 945556009272 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 945556009273 ATP binding site [chemical binding]; other site 945556009274 Mg2+ binding site [ion binding]; other site 945556009275 G-X-G motif; other site 945556009276 Response regulator receiver domain; Region: Response_reg; pfam00072 945556009277 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 945556009278 active site 945556009279 phosphorylation site [posttranslational modification] 945556009280 intermolecular recognition site; other site 945556009281 dimerization interface [polypeptide binding]; other site 945556009282 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 945556009283 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 945556009284 active site 945556009285 phosphorylation site [posttranslational modification] 945556009286 intermolecular recognition site; other site 945556009287 dimerization interface [polypeptide binding]; other site 945556009288 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 945556009289 DNA binding residues [nucleotide binding] 945556009290 dimerization interface [polypeptide binding]; other site 945556009291 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 945556009292 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 945556009293 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 945556009294 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 945556009295 active site 945556009296 dimer interface [polypeptide binding]; other site 945556009297 non-prolyl cis peptide bond; other site 945556009298 insertion regions; other site 945556009299 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 945556009300 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 945556009301 dimerization interface [polypeptide binding]; other site 945556009302 putative DNA binding site [nucleotide binding]; other site 945556009303 putative Zn2+ binding site [ion binding]; other site 945556009304 AsnC family; Region: AsnC_trans_reg; pfam01037 945556009305 Isochorismatase family; Region: Isochorismatase; pfam00857 945556009306 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 945556009307 catalytic triad [active] 945556009308 conserved cis-peptide bond; other site 945556009309 Peroxidase, family 2; Region: Peroxidase_2; pfam01328 945556009310 acetyl-CoA synthetase; Provisional; Region: PRK00174 945556009311 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 945556009312 active site 945556009313 CoA binding site [chemical binding]; other site 945556009314 acyl-activating enzyme (AAE) consensus motif; other site 945556009315 AMP binding site [chemical binding]; other site 945556009316 acetate binding site [chemical binding]; other site 945556009317 Protein of unknown function (DUF805); Region: DUF805; pfam05656 945556009318 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 945556009319 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 945556009320 Mechanosensitive ion channel; Region: MS_channel; pfam00924 945556009321 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 945556009322 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 945556009323 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 945556009324 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 945556009325 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 945556009326 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 945556009327 FMN binding site [chemical binding]; other site 945556009328 active site 945556009329 substrate binding site [chemical binding]; other site 945556009330 catalytic residue [active] 945556009331 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 945556009332 putative DNA binding site [nucleotide binding]; other site 945556009333 dimerization interface [polypeptide binding]; other site 945556009334 putative Zn2+ binding site [ion binding]; other site 945556009335 peptide chain release factor 2; Provisional; Region: PRK08787 945556009336 This domain is found in peptide chain release factors; Region: PCRF; smart00937 945556009337 RF-1 domain; Region: RF-1; pfam00472 945556009338 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 945556009339 DHH family; Region: DHH; pfam01368 945556009340 DHHA1 domain; Region: DHHA1; pfam02272 945556009341 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 945556009342 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 945556009343 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 945556009344 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 945556009345 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 945556009346 active site 945556009347 substrate binding site [chemical binding]; other site 945556009348 metal binding site [ion binding]; metal-binding site 945556009349 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 945556009350 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 945556009351 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 945556009352 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 945556009353 active site 945556009354 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 945556009355 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 945556009356 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 945556009357 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 945556009358 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 945556009359 N-terminal plug; other site 945556009360 ligand-binding site [chemical binding]; other site 945556009361 Predicted membrane protein [Function unknown]; Region: COG2119 945556009362 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 945556009363 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 945556009364 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 945556009365 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 945556009366 E3 interaction surface; other site 945556009367 lipoyl attachment site [posttranslational modification]; other site 945556009368 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 945556009369 E3 interaction surface; other site 945556009370 lipoyl attachment site [posttranslational modification]; other site 945556009371 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 945556009372 E3 interaction surface; other site 945556009373 lipoyl attachment site [posttranslational modification]; other site 945556009374 e3 binding domain; Region: E3_binding; pfam02817 945556009375 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 945556009376 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 945556009377 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 945556009378 dimer interface [polypeptide binding]; other site 945556009379 TPP-binding site [chemical binding]; other site 945556009380 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 945556009381 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 945556009382 Peptidase family M23; Region: Peptidase_M23; pfam01551 945556009383 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 945556009384 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 945556009385 cell division protein FtsZ; Validated; Region: PRK09330 945556009386 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 945556009387 nucleotide binding site [chemical binding]; other site 945556009388 SulA interaction site; other site 945556009389 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 945556009390 Cell division protein FtsA; Region: FtsA; smart00842 945556009391 Cell division protein FtsA; Region: FtsA; pfam14450 945556009392 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 945556009393 Cell division protein FtsQ; Region: FtsQ; pfam03799 945556009394 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 945556009395 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 945556009396 ATP-grasp domain; Region: ATP-grasp_4; cl17255 945556009397 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 945556009398 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 945556009399 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 945556009400 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 945556009401 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 945556009402 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 945556009403 active site 945556009404 homodimer interface [polypeptide binding]; other site 945556009405 glutathione synthetase; Provisional; Region: PRK05246 945556009406 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 945556009407 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 945556009408 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 945556009409 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 945556009410 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 945556009411 N-terminal plug; other site 945556009412 ligand-binding site [chemical binding]; other site 945556009413 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 945556009414 active site 945556009415 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 945556009416 putative active site [active] 945556009417 putative catalytic site [active] 945556009418 putative DNA binding site [nucleotide binding]; other site 945556009419 putative phosphate binding site [ion binding]; other site 945556009420 metal binding site A [ion binding]; metal-binding site 945556009421 putative AP binding site [nucleotide binding]; other site 945556009422 putative metal binding site B [ion binding]; other site 945556009423 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 945556009424 ArsC family; Region: ArsC; pfam03960 945556009425 putative catalytic residues [active] 945556009426 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 945556009427 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 945556009428 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 945556009429 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 945556009430 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 945556009431 metal binding site [ion binding]; metal-binding site 945556009432 active site 945556009433 I-site; other site 945556009434 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 945556009435 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 945556009436 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 945556009437 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 945556009438 DsbD alpha interface [polypeptide binding]; other site 945556009439 catalytic residues [active] 945556009440 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 945556009441 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 945556009442 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 945556009443 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; cl00250 945556009444 30S subunit binding site; other site 945556009445 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 945556009446 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 945556009447 active site 945556009448 catalytic site [active] 945556009449 tetramer interface [polypeptide binding]; other site 945556009450 putative OHCU decarboxylase; Provisional; Region: PRK13798 945556009451 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 945556009452 active site 945556009453 homotetramer interface [polypeptide binding]; other site 945556009454 xanthine permease; Region: pbuX; TIGR03173 945556009455 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 945556009456 hypothetical protein; Provisional; Region: PRK07236 945556009457 FAD binding domain; Region: FAD_binding_3; pfam01494 945556009458 allantoicase; Provisional; Region: PRK13257 945556009459 Allantoicase repeat; Region: Allantoicase; pfam03561 945556009460 Allantoicase repeat; Region: Allantoicase; pfam03561 945556009461 ureidoglycolate hydrolase; Provisional; Region: PRK03606 945556009462 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 945556009463 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 945556009464 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 945556009465 ATP binding site [chemical binding]; other site 945556009466 Mg2+ binding site [ion binding]; other site 945556009467 G-X-G motif; other site 945556009468 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 945556009469 anchoring element; other site 945556009470 dimer interface [polypeptide binding]; other site 945556009471 ATP binding site [chemical binding]; other site 945556009472 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 945556009473 active site 945556009474 metal binding site [ion binding]; metal-binding site 945556009475 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 945556009476 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 945556009477 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 945556009478 PGAP1-like protein; Region: PGAP1; pfam07819 945556009479 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 945556009480 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 945556009481 Bacterial SH3 domain; Region: SH3_3; cl17532 945556009482 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 945556009483 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 945556009484 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 945556009485 CHAP domain; Region: CHAP; cl17642 945556009486 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 945556009487 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 945556009488 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 945556009489 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 945556009490 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 945556009491 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 945556009492 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 945556009493 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 945556009494 Protein of unknown function (DUF445); Region: DUF445; pfam04286 945556009495 methionine aminotransferase; Validated; Region: PRK09082 945556009496 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 945556009497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556009498 homodimer interface [polypeptide binding]; other site 945556009499 catalytic residue [active] 945556009500 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 945556009501 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 945556009502 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 945556009503 short chain dehydrogenase; Provisional; Region: PRK07832 945556009504 NAD(P) binding site [chemical binding]; other site 945556009505 active site 945556009506 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556009507 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 945556009508 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 945556009509 active site 945556009510 phosphorylation site [posttranslational modification] 945556009511 intermolecular recognition site; other site 945556009512 dimerization interface [polypeptide binding]; other site 945556009513 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 945556009514 DNA binding site [nucleotide binding] 945556009515 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 945556009516 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 945556009517 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 945556009518 putative active site [active] 945556009519 heme pocket [chemical binding]; other site 945556009520 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 945556009521 dimer interface [polypeptide binding]; other site 945556009522 phosphorylation site [posttranslational modification] 945556009523 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 945556009524 ATP binding site [chemical binding]; other site 945556009525 Mg2+ binding site [ion binding]; other site 945556009526 G-X-G motif; other site 945556009527 Secretory lipase; Region: LIP; pfam03583 945556009528 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 945556009529 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 945556009530 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 945556009531 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 945556009532 active site residue [active] 945556009533 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 945556009534 active site residue [active] 945556009535 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 945556009536 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 945556009537 active site 945556009538 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 945556009539 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 945556009540 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 945556009541 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 945556009542 tetramer interface [polypeptide binding]; other site 945556009543 heme binding pocket [chemical binding]; other site 945556009544 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 945556009545 putative active site [active] 945556009546 dimerization interface [polypeptide binding]; other site 945556009547 putative tRNAtyr binding site [nucleotide binding]; other site 945556009548 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 945556009549 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 945556009550 phosphoserine phosphatase SerB; Region: serB; TIGR00338 945556009551 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 945556009552 motif II; other site 945556009553 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 945556009554 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 945556009555 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 945556009556 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 945556009557 dimerization interface [polypeptide binding]; other site 945556009558 active site 945556009559 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 945556009560 homopentamer interface [polypeptide binding]; other site 945556009561 active site 945556009562 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 945556009563 thiamine monophosphate kinase; Provisional; Region: PRK05731 945556009564 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 945556009565 ATP binding site [chemical binding]; other site 945556009566 dimerization interface [polypeptide binding]; other site 945556009567 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 945556009568 tetramer interfaces [polypeptide binding]; other site 945556009569 binuclear metal-binding site [ion binding]; other site 945556009570 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 945556009571 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 945556009572 Substrate binding site; other site 945556009573 Mg++ binding site; other site 945556009574 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 945556009575 active site 945556009576 substrate binding site [chemical binding]; other site 945556009577 CoA binding site [chemical binding]; other site 945556009578 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 945556009579 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 945556009580 glutaminase active site [active] 945556009581 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 945556009582 dimer interface [polypeptide binding]; other site 945556009583 active site 945556009584 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 945556009585 dimer interface [polypeptide binding]; other site 945556009586 active site 945556009587 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 945556009588 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 945556009589 glutamate racemase; Provisional; Region: PRK00865 945556009590 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 945556009591 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 945556009592 motif I; other site 945556009593 active site 945556009594 agmatinase; Region: agmatinase; TIGR01230 945556009595 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 945556009596 putative active site [active] 945556009597 putative metal binding site [ion binding]; other site 945556009598 imidazolonepropionase; Validated; Region: PRK09356 945556009599 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 945556009600 active site 945556009601 putative proline-specific permease; Provisional; Region: proY; PRK10580 945556009602 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 945556009603 active sites [active] 945556009604 tetramer interface [polypeptide binding]; other site 945556009605 urocanate hydratase; Provisional; Region: PRK05414 945556009606 HutD; Region: HutD; pfam05962 945556009607 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 945556009608 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556009609 DNA-binding site [nucleotide binding]; DNA binding site 945556009610 UTRA domain; Region: UTRA; pfam07702 945556009611 Acyltransferase family; Region: Acyl_transf_3; pfam01757 945556009612 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 945556009613 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 945556009614 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 945556009615 Peptidase M15; Region: Peptidase_M15_3; cl01194 945556009616 aromatic amino acid transporter; Provisional; Region: PRK10238 945556009617 fumarylacetoacetase; Region: PLN02856 945556009618 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 945556009619 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 945556009620 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 945556009621 maleylacetoacetate isomerase; Region: maiA; TIGR01262 945556009622 C-terminal domain interface [polypeptide binding]; other site 945556009623 GSH binding site (G-site) [chemical binding]; other site 945556009624 putative dimer interface [polypeptide binding]; other site 945556009625 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 945556009626 dimer interface [polypeptide binding]; other site 945556009627 N-terminal domain interface [polypeptide binding]; other site 945556009628 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 945556009629 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 945556009630 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 945556009631 active site 945556009632 metal binding site [ion binding]; metal-binding site 945556009633 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 945556009634 Transcriptional regulator [Transcription]; Region: IclR; COG1414 945556009635 Bacterial transcriptional regulator; Region: IclR; pfam01614 945556009636 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 945556009637 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 945556009638 dimer interface [polypeptide binding]; other site 945556009639 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 945556009640 active site 945556009641 Fe binding site [ion binding]; other site 945556009642 Uncharacterized conserved protein [Function unknown]; Region: COG1683 945556009643 putative efflux protein, MATE family; Region: matE; TIGR00797 945556009644 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 945556009645 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 945556009646 Sodium Bile acid symporter family; Region: SBF; pfam01758 945556009647 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 945556009648 Isochorismatase family; Region: Isochorismatase; pfam00857 945556009649 catalytic triad [active] 945556009650 metal binding site [ion binding]; metal-binding site 945556009651 conserved cis-peptide bond; other site 945556009652 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 945556009653 dihydrodipicolinate synthase; Region: dapA; TIGR00674 945556009654 dimer interface [polypeptide binding]; other site 945556009655 active site 945556009656 catalytic residue [active] 945556009657 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 945556009658 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 945556009659 ATP binding site [chemical binding]; other site 945556009660 active site 945556009661 substrate binding site [chemical binding]; other site 945556009662 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 945556009663 recombination factor protein RarA; Reviewed; Region: PRK13342 945556009664 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 945556009665 Walker A motif; other site 945556009666 ATP binding site [chemical binding]; other site 945556009667 Walker B motif; other site 945556009668 arginine finger; other site 945556009669 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 945556009670 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 945556009671 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 945556009672 hypothetical protein; Provisional; Region: PRK05170 945556009673 Small integral membrane protein [Function unknown]; Region: COG5487; cl17674 945556009674 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 945556009675 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 945556009676 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 945556009677 nucleotide binding site/active site [active] 945556009678 HIT family signature motif; other site 945556009679 catalytic residue [active] 945556009680 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 945556009681 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 945556009682 minor groove reading motif; other site 945556009683 helix-hairpin-helix signature motif; other site 945556009684 substrate binding pocket [chemical binding]; other site 945556009685 active site 945556009686 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 945556009687 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 945556009688 DNA binding and oxoG recognition site [nucleotide binding] 945556009689 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 945556009690 Peptidase family M23; Region: Peptidase_M23; pfam01551 945556009691 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 945556009692 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 945556009693 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 945556009694 putative NAD(P) binding site [chemical binding]; other site 945556009695 putative substrate binding site [chemical binding]; other site 945556009696 catalytic Zn binding site [ion binding]; other site 945556009697 structural Zn binding site [ion binding]; other site 945556009698 dimer interface [polypeptide binding]; other site 945556009699 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 945556009700 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 945556009701 DNA-binding site [nucleotide binding]; DNA binding site 945556009702 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 945556009703 pyridoxal 5'-phosphate binding site [chemical binding]; other site 945556009704 homodimer interface [polypeptide binding]; other site 945556009705 catalytic residue [active] 945556009706 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556009707 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556009708 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 945556009709 putative effector binding pocket; other site 945556009710 dimerization interface [polypeptide binding]; other site 945556009711 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 945556009712 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 945556009713 active site 945556009714 catalytic tetrad [active] 945556009715 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 945556009716 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 945556009717 putative substrate translocation pore; other site 945556009718 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 945556009719 putative lipid binding site [chemical binding]; other site 945556009720 dihydrodipicolinate reductase; Provisional; Region: PRK00048 945556009721 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 945556009722 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 945556009723 chaperone protein DnaJ; Provisional; Region: PRK10767 945556009724 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 945556009725 HSP70 interaction site [polypeptide binding]; other site 945556009726 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 945556009727 substrate binding site [polypeptide binding]; other site 945556009728 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 945556009729 Zn binding sites [ion binding]; other site 945556009730 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 945556009731 dimer interface [polypeptide binding]; other site 945556009732 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 945556009733 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 945556009734 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 945556009735 HlyD family secretion protein; Region: HlyD_3; pfam13437 945556009736 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 945556009737 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 945556009738 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 945556009739 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 945556009740 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 945556009741 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 945556009742 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556009743 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556009744 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 945556009745 dimerization interface [polypeptide binding]; other site 945556009746 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 945556009747 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 945556009748 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 945556009749 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 945556009750 putative active site [active] 945556009751 substrate binding site [chemical binding]; other site 945556009752 putative cosubstrate binding site; other site 945556009753 catalytic site [active] 945556009754 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 945556009755 substrate binding site [chemical binding]; other site 945556009756 16S rRNA methyltransferase B; Provisional; Region: PRK10901 945556009757 NusB family; Region: NusB; pfam01029 945556009758 putative RNA binding site [nucleotide binding]; other site 945556009759 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 945556009760 S-adenosylmethionine binding site [chemical binding]; other site 945556009761 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 945556009762 Na2 binding site [ion binding]; other site 945556009763 putative substrate binding site 1 [chemical binding]; other site 945556009764 Na binding site 1 [ion binding]; other site 945556009765 putative substrate binding site 2 [chemical binding]; other site 945556009766 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 945556009767 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 945556009768 GST_N family, unknown subfamily 4; 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_4; cd03056 945556009769 putative C-terminal domain interface [polypeptide binding]; other site 945556009770 putative GSH binding site (G-site) [chemical binding]; other site 945556009771 putative dimer interface [polypeptide binding]; other site 945556009772 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 945556009773 dimer interface [polypeptide binding]; other site 945556009774 N-terminal domain interface [polypeptide binding]; other site 945556009775 substrate binding pocket (H-site) [chemical binding]; other site 945556009776 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 945556009777 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 945556009778 substrate binding site [chemical binding]; other site 945556009779 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 945556009780 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 945556009781 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 945556009782 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 945556009783 Transcriptional regulator [Transcription]; Region: LysR; COG0583 945556009784 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 945556009785 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 945556009786 putative effector binding pocket; other site 945556009787 dimerization interface [polypeptide binding]; other site 945556009788 GrpE; Region: GrpE; pfam01025 945556009789 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 945556009790 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 945556009791 dimer interface [polypeptide binding]; other site 945556009792 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 945556009793 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 945556009794 nucleotide binding site [chemical binding]; other site 945556009795 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 945556009796 active site 945556009797 Dual-action HEIGH metallo-peptidase; Region: Peptidase_M57; pfam12388 945556009798 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 945556009799 active site 945556009800 Transglycosylase SLT domain; Region: SLT_2; pfam13406 945556009801 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 945556009802 N-acetyl-D-glucosamine binding site [chemical binding]; other site 945556009803 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 945556009804 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 945556009805 ATP-grasp domain; Region: ATP-grasp; pfam02222 945556009806 AIR carboxylase; Region: AIRC; pfam00731 945556009807 Protein of unknown function, DUF486; Region: DUF486; cl01236 945556009808 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 945556009809 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 945556009810 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 945556009811 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 945556009812 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 945556009813 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 945556009814 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 945556009815 active site 945556009816 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 945556009817 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 945556009818 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 945556009819 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 945556009820 [2Fe-2S] cluster binding site [ion binding]; other site 945556009821 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 945556009822 hydrophobic ligand binding site; other site 945556009823 guanine deaminase; Provisional; Region: PRK09228 945556009824 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 945556009825 active site 945556009826 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 945556009827 active site 945556009828 Predicted membrane protein [Function unknown]; Region: COG2261 945556009829 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 945556009830 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 945556009831 dimerization domain [polypeptide binding]; other site 945556009832 dimer interface [polypeptide binding]; other site 945556009833 catalytic residues [active] 945556009834 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 945556009835 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 945556009836 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 945556009837 putative metal binding site [ion binding]; other site 945556009838 putative homodimer interface [polypeptide binding]; other site 945556009839 putative homotetramer interface [polypeptide binding]; other site 945556009840 putative homodimer-homodimer interface [polypeptide binding]; other site 945556009841 putative allosteric switch controlling residues; other site 945556009842 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 945556009843 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 945556009844 trmE is a tRNA modification GTPase; Region: trmE; cd04164 945556009845 G1 box; other site 945556009846 GTP/Mg2+ binding site [chemical binding]; other site 945556009847 Switch I region; other site 945556009848 G2 box; other site 945556009849 Switch II region; other site 945556009850 G3 box; other site 945556009851 G4 box; other site 945556009852 G5 box; other site 945556009853 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 945556009854 membrane protein insertase; Provisional; Region: PRK01318 945556009855 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 945556009856 hypothetical protein; Provisional; Region: PRK14386 945556009857 Ribonuclease P; Region: Ribonuclease_P; pfam00825 945556009858 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399