-- dump date 20140620_063926 -- class Genbank::misc_feature -- table misc_feature_note -- id note 323850000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 323850000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 323850000003 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 323850000004 Walker A motif; other site 323850000005 ATP binding site [chemical binding]; other site 323850000006 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 323850000007 Walker B motif; other site 323850000008 arginine finger; other site 323850000009 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 323850000010 DnaA box-binding interface [nucleotide binding]; other site 323850000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 323850000012 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 323850000013 putative DNA binding surface [nucleotide binding]; other site 323850000014 dimer interface [polypeptide binding]; other site 323850000015 beta-clamp/clamp loader binding surface; other site 323850000016 beta-clamp/translesion DNA polymerase binding surface; other site 323850000017 recombination protein F; Reviewed; Region: recF; PRK00064 323850000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323850000019 Walker A/P-loop; other site 323850000020 ATP binding site [chemical binding]; other site 323850000021 Q-loop/lid; other site 323850000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323850000023 ABC transporter signature motif; other site 323850000024 Walker B; other site 323850000025 D-loop; other site 323850000026 H-loop/switch region; other site 323850000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 323850000028 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 323850000029 ATP binding site [chemical binding]; other site 323850000030 Mg2+ binding site [ion binding]; other site 323850000031 G-X-G motif; other site 323850000032 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 323850000033 anchoring element; other site 323850000034 dimer interface [polypeptide binding]; other site 323850000035 ATP binding site [chemical binding]; other site 323850000036 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 323850000037 active site 323850000038 putative metal-binding site [ion binding]; other site 323850000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 323850000040 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_1; cd10801 323850000041 putative active site [active] 323850000042 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 323850000043 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 323850000044 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 323850000045 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 323850000046 DALR anticodon binding domain; Region: DALR_1; pfam05746 323850000047 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 323850000048 dimer interface [polypeptide binding]; other site 323850000049 motif 1; other site 323850000050 active site 323850000051 motif 2; other site 323850000052 motif 3; other site 323850000053 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 323850000054 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323850000055 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 323850000056 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 323850000057 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 323850000058 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; cd01292 323850000059 active site 323850000060 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 323850000061 MOSC domain; Region: MOSC; pfam03473 323850000062 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 323850000063 CPxP motif; other site 323850000064 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 323850000065 putative deacylase active site [active] 323850000066 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850000067 Coenzyme A binding pocket [chemical binding]; other site 323850000068 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 323850000069 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 323850000070 dimer interface [polypeptide binding]; other site 323850000071 active site 323850000072 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 323850000073 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 323850000074 substrate binding site [chemical binding]; other site 323850000075 oxyanion hole (OAH) forming residues; other site 323850000076 trimer interface [polypeptide binding]; other site 323850000077 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 323850000078 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 323850000079 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 323850000080 proline dipeptidase; Provisional; Region: PRK13607 323850000081 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 323850000082 active site 323850000083 hypothetical protein; Provisional; Region: PRK11568 323850000084 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 323850000085 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 323850000086 Cation transport protein; Region: TrkH; cl17365 323850000087 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 323850000088 Flavodoxin domain; Region: Flavodoxin_5; cl17428 323850000089 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 323850000090 dimerization interface [polypeptide binding]; other site 323850000091 putative DNA binding site [nucleotide binding]; other site 323850000092 putative Zn2+ binding site [ion binding]; other site 323850000093 Flavodoxin domain; Region: Flavodoxin_5; cl17428 323850000094 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 323850000095 active site 323850000096 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 323850000097 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 323850000098 C-terminal domain interface [polypeptide binding]; other site 323850000099 GSH binding site (G-site) [chemical binding]; other site 323850000100 dimer interface [polypeptide binding]; other site 323850000101 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 323850000102 N-terminal domain interface [polypeptide binding]; other site 323850000103 dimer interface [polypeptide binding]; other site 323850000104 substrate binding pocket (H-site) [chemical binding]; other site 323850000105 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850000106 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850000107 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 323850000108 putative effector binding pocket; other site 323850000109 dimerization interface [polypeptide binding]; other site 323850000110 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 323850000111 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 323850000112 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 323850000113 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323850000114 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850000115 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 323850000116 Protein export membrane protein; Region: SecD_SecF; cl14618 323850000117 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 323850000118 putative active site [active] 323850000119 Zn binding site [ion binding]; other site 323850000120 Methyltransferase domain; Region: Methyltransf_31; pfam13847 323850000121 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 323850000122 S-adenosylmethionine binding site [chemical binding]; other site 323850000123 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 323850000124 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 323850000125 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 323850000126 active site 323850000127 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 323850000128 active site 323850000129 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 323850000130 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 323850000131 GIY-YIG motif/motif A; other site 323850000132 putative active site [active] 323850000133 putative metal binding site [ion binding]; other site 323850000134 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 323850000135 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323850000136 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 323850000137 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 323850000138 Nitrate and nitrite sensing; Region: NIT; pfam08376 323850000139 HAMP domain; Region: HAMP; pfam00672 323850000140 dimerization interface [polypeptide binding]; other site 323850000141 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 323850000142 PAS domain; Region: PAS_9; pfam13426 323850000143 putative active site [active] 323850000144 heme pocket [chemical binding]; other site 323850000145 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850000146 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850000147 metal binding site [ion binding]; metal-binding site 323850000148 active site 323850000149 I-site; other site 323850000150 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 323850000151 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 323850000152 Ferritin-like domain; Region: Ferritin; pfam00210 323850000153 ferroxidase diiron center [ion binding]; other site 323850000154 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323850000155 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323850000156 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850000157 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 323850000158 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 323850000159 dimer interface [polypeptide binding]; other site 323850000160 putative functional site; other site 323850000161 putative MPT binding site; other site 323850000162 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 323850000163 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 323850000164 ATP binding site [chemical binding]; other site 323850000165 substrate interface [chemical binding]; other site 323850000166 dihydromonapterin reductase; Provisional; Region: PRK06483 323850000167 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323850000168 NAD(P) binding site [chemical binding]; other site 323850000169 active site 323850000170 BCCT family transporter; Region: BCCT; pfam02028 323850000171 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 323850000172 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 323850000173 active site 323850000174 catalytic site [active] 323850000175 substrate binding site [chemical binding]; other site 323850000176 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 323850000177 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 323850000178 ligand binding site [chemical binding]; other site 323850000179 flexible hinge region; other site 323850000180 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 323850000181 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 323850000182 metal binding triad; other site 323850000183 Helix-turn-helix domain; Region: HTH_17; pfam12728 323850000184 PBP superfamily domain; Region: PBP_like; pfam12727 323850000185 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 323850000186 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 323850000187 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 323850000188 Ferredoxin [Energy production and conversion]; Region: COG1146 323850000189 4Fe-4S binding domain; Region: Fer4; cl02805 323850000190 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 323850000191 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 323850000192 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 323850000193 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 323850000194 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 323850000195 [4Fe-4S] binding site [ion binding]; other site 323850000196 molybdopterin cofactor binding site; other site 323850000197 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 323850000198 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 323850000199 molybdopterin cofactor binding site; other site 323850000200 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 323850000201 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 323850000202 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 323850000203 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 323850000204 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 323850000205 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 323850000206 [4Fe-4S] binding site [ion binding]; other site 323850000207 molybdopterin cofactor binding site; other site 323850000208 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 323850000209 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 323850000210 molybdopterin cofactor binding site; other site 323850000211 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 323850000212 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 323850000213 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 323850000214 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 323850000215 fumarate hydratase; Reviewed; Region: fumC; PRK00485 323850000216 tetramer interface [polypeptide binding]; other site 323850000217 Predicted periplasmic protein [Function unknown]; Region: COG3904 323850000218 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 323850000219 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 323850000220 dimer interface [polypeptide binding]; other site 323850000221 active site 323850000222 metal binding site [ion binding]; metal-binding site 323850000223 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 323850000224 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850000225 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 323850000226 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850000227 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 323850000228 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 323850000229 FeS/SAM binding site; other site 323850000230 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 323850000231 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 323850000232 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 323850000233 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850000234 Coenzyme A binding pocket [chemical binding]; other site 323850000235 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 323850000236 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 323850000237 substrate binding site [chemical binding]; other site 323850000238 ATP binding site [chemical binding]; other site 323850000239 TAP-like protein; Region: Abhydrolase_4; pfam08386 323850000240 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 323850000241 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 323850000242 dimerization interface [polypeptide binding]; other site 323850000243 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 323850000244 dimer interface [polypeptide binding]; other site 323850000245 phosphorylation site [posttranslational modification] 323850000246 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 323850000247 ATP binding site [chemical binding]; other site 323850000248 Mg2+ binding site [ion binding]; other site 323850000249 G-X-G motif; other site 323850000250 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 323850000251 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 323850000252 active site 323850000253 phosphorylation site [posttranslational modification] 323850000254 intermolecular recognition site; other site 323850000255 dimerization interface [polypeptide binding]; other site 323850000256 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 323850000257 DNA binding site [nucleotide binding] 323850000258 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 323850000259 MOSC domain; Region: MOSC; pfam03473 323850000260 3-alpha domain; Region: 3-alpha; pfam03475 323850000261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 323850000262 Cache domain; Region: Cache_1; pfam02743 323850000263 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 323850000264 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 323850000265 dimerization interface [polypeptide binding]; other site 323850000266 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323850000267 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850000268 dimer interface [polypeptide binding]; other site 323850000269 putative CheW interface [polypeptide binding]; other site 323850000270 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 323850000271 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 323850000272 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 323850000273 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 323850000274 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 323850000275 FeS/SAM binding site; other site 323850000276 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 323850000277 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 323850000278 MPT binding site; other site 323850000279 trimer interface [polypeptide binding]; other site 323850000280 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 323850000281 trimer interface [polypeptide binding]; other site 323850000282 dimer interface [polypeptide binding]; other site 323850000283 putative active site [active] 323850000284 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 323850000285 MoaE interaction surface [polypeptide binding]; other site 323850000286 MoeB interaction surface [polypeptide binding]; other site 323850000287 thiocarboxylated glycine; other site 323850000288 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 323850000289 MoaE homodimer interface [polypeptide binding]; other site 323850000290 MoaD interaction [polypeptide binding]; other site 323850000291 active site residues [active] 323850000292 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 323850000293 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 323850000294 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 323850000295 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323850000296 dimer interface [polypeptide binding]; other site 323850000297 conserved gate region; other site 323850000298 putative PBP binding loops; other site 323850000299 ABC-ATPase subunit interface; other site 323850000300 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 323850000301 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323850000302 Walker A/P-loop; other site 323850000303 ATP binding site [chemical binding]; other site 323850000304 Q-loop/lid; other site 323850000305 ABC transporter signature motif; other site 323850000306 Walker B; other site 323850000307 D-loop; other site 323850000308 H-loop/switch region; other site 323850000309 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 323850000310 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 323850000311 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323850000312 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 323850000313 active site 323850000314 phosphorylation site [posttranslational modification] 323850000315 intermolecular recognition site; other site 323850000316 dimerization interface [polypeptide binding]; other site 323850000317 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 323850000318 DNA binding site [nucleotide binding] 323850000319 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323850000320 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 323850000321 dimerization interface [polypeptide binding]; other site 323850000322 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 323850000323 dimer interface [polypeptide binding]; other site 323850000324 phosphorylation site [posttranslational modification] 323850000325 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 323850000326 ATP binding site [chemical binding]; other site 323850000327 Mg2+ binding site [ion binding]; other site 323850000328 G-X-G motif; other site 323850000329 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 323850000330 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 323850000331 active site 323850000332 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 323850000333 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 323850000334 homotrimer interaction site [polypeptide binding]; other site 323850000335 putative active site [active] 323850000336 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 323850000337 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 323850000338 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 323850000339 Domain of unknown function (DUF333); Region: DUF333; pfam03891 323850000340 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 323850000341 putative active site [active] 323850000342 Zn binding site [ion binding]; other site 323850000343 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 323850000344 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 323850000345 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 323850000346 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 323850000347 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 323850000348 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 323850000349 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 323850000350 putative active site [active] 323850000351 putative metal binding site [ion binding]; other site 323850000352 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 323850000353 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 323850000354 active site 323850000355 phosphorylation site [posttranslational modification] 323850000356 intermolecular recognition site; other site 323850000357 dimerization interface [polypeptide binding]; other site 323850000358 CheB methylesterase; Region: CheB_methylest; pfam01339 323850000359 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 323850000360 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 323850000361 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 323850000362 PAS domain; Region: PAS_9; pfam13426 323850000363 PAS domain; Region: PAS_9; pfam13426 323850000364 PAS fold; Region: PAS_4; pfam08448 323850000365 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323850000366 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850000367 dimer interface [polypeptide binding]; other site 323850000368 putative CheW interface [polypeptide binding]; other site 323850000369 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 323850000370 putative CheA interaction surface; other site 323850000371 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 323850000372 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 323850000373 putative binding surface; other site 323850000374 active site 323850000375 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 323850000376 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 323850000377 ATP binding site [chemical binding]; other site 323850000378 Mg2+ binding site [ion binding]; other site 323850000379 G-X-G motif; other site 323850000380 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 323850000381 Response regulator receiver domain; Region: Response_reg; pfam00072 323850000382 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 323850000383 active site 323850000384 phosphorylation site [posttranslational modification] 323850000385 intermolecular recognition site; other site 323850000386 dimerization interface [polypeptide binding]; other site 323850000387 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 323850000388 anti sigma factor interaction site; other site 323850000389 regulatory phosphorylation site [posttranslational modification]; other site 323850000390 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 323850000391 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 323850000392 Cu(I) binding site [ion binding]; other site 323850000393 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 323850000394 UbiA prenyltransferase family; Region: UbiA; pfam01040 323850000395 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 323850000396 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 323850000397 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 323850000398 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 323850000399 Subunit III/VIIa interface [polypeptide binding]; other site 323850000400 Phospholipid binding site [chemical binding]; other site 323850000401 Subunit I/III interface [polypeptide binding]; other site 323850000402 Subunit III/VIb interface [polypeptide binding]; other site 323850000403 Subunit III/VIa interface; other site 323850000404 Subunit III/Vb interface [polypeptide binding]; other site 323850000405 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 323850000406 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 323850000407 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 323850000408 Subunit I/III interface [polypeptide binding]; other site 323850000409 D-pathway; other site 323850000410 Subunit I/VIIc interface [polypeptide binding]; other site 323850000411 Subunit I/IV interface [polypeptide binding]; other site 323850000412 Subunit I/II interface [polypeptide binding]; other site 323850000413 Low-spin heme (heme a) binding site [chemical binding]; other site 323850000414 Subunit I/VIIa interface [polypeptide binding]; other site 323850000415 Dimer interface; other site 323850000416 Subunit I/VIa interface [polypeptide binding]; other site 323850000417 Putative water exit pathway; other site 323850000418 Binuclear center (heme a3/CuB) [ion binding]; other site 323850000419 K-pathway; other site 323850000420 Subunit I/Vb interface [polypeptide binding]; other site 323850000421 Putative proton exit pathway; other site 323850000422 Subunit I/VIb interface; other site 323850000423 Subunit I/VIc interface [polypeptide binding]; other site 323850000424 Electron transfer pathway; other site 323850000425 Subunit I/VIIIb interface [polypeptide binding]; other site 323850000426 Subunit I/VIIb interface [polypeptide binding]; other site 323850000427 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 323850000428 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 323850000429 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 323850000430 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323850000431 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 323850000432 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323850000433 Cytochrome c; Region: Cytochrom_C; pfam00034 323850000434 Cell division inhibitor SulA; Region: SulA; cl01880 323850000435 LexA repressor; Validated; Region: PRK00215 323850000436 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 323850000437 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 323850000438 Catalytic site [active] 323850000439 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 323850000440 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 323850000441 motif II; other site 323850000442 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 323850000443 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 323850000444 dimer interface [polypeptide binding]; other site 323850000445 ADP-ribose binding site [chemical binding]; other site 323850000446 active site 323850000447 nudix motif; other site 323850000448 metal binding site [ion binding]; metal-binding site 323850000449 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 323850000450 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 323850000451 active site 323850000452 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 323850000453 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850000454 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 323850000455 Coenzyme A binding pocket [chemical binding]; other site 323850000456 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323850000457 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 323850000458 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 323850000459 putative acyl-acceptor binding pocket; other site 323850000460 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 323850000461 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 323850000462 active site residue [active] 323850000463 selenophosphate synthetase; Provisional; Region: PRK00943 323850000464 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 323850000465 dimerization interface [polypeptide binding]; other site 323850000466 putative ATP binding site [chemical binding]; other site 323850000467 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 323850000468 Fatty acid desaturase; Region: FA_desaturase; pfam00487 323850000469 Di-iron ligands [ion binding]; other site 323850000470 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 323850000471 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 323850000472 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323850000473 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 323850000474 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 323850000475 S-adenosylmethionine binding site [chemical binding]; other site 323850000476 glutamate racemase; Provisional; Region: PRK00865 323850000477 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 323850000478 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 323850000479 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 323850000480 FAD binding domain; Region: FAD_binding_4; pfam01565 323850000481 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 323850000482 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 323850000483 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 323850000484 putative DNA binding site [nucleotide binding]; other site 323850000485 putative Zn2+ binding site [ion binding]; other site 323850000486 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 323850000487 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 323850000488 pantothenate kinase; Provisional; Region: PRK05439 323850000489 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 323850000490 ATP-binding site [chemical binding]; other site 323850000491 CoA-binding site [chemical binding]; other site 323850000492 Mg2+-binding site [ion binding]; other site 323850000493 elongation factor Tu; Reviewed; Region: PRK00049 323850000494 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 323850000495 G1 box; other site 323850000496 GEF interaction site [polypeptide binding]; other site 323850000497 GTP/Mg2+ binding site [chemical binding]; other site 323850000498 Switch I region; other site 323850000499 G2 box; other site 323850000500 G3 box; other site 323850000501 Switch II region; other site 323850000502 G4 box; other site 323850000503 G5 box; other site 323850000504 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 323850000505 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 323850000506 Antibiotic Binding Site [chemical binding]; other site 323850000507 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 323850000508 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 323850000509 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 323850000510 putative homodimer interface [polypeptide binding]; other site 323850000511 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 323850000512 heterodimer interface [polypeptide binding]; other site 323850000513 homodimer interface [polypeptide binding]; other site 323850000514 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 323850000515 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 323850000516 23S rRNA interface [nucleotide binding]; other site 323850000517 L7/L12 interface [polypeptide binding]; other site 323850000518 putative thiostrepton binding site; other site 323850000519 L25 interface [polypeptide binding]; other site 323850000520 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 323850000521 mRNA/rRNA interface [nucleotide binding]; other site 323850000522 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 323850000523 23S rRNA interface [nucleotide binding]; other site 323850000524 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 323850000525 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 323850000526 core dimer interface [polypeptide binding]; other site 323850000527 peripheral dimer interface [polypeptide binding]; other site 323850000528 L10 interface [polypeptide binding]; other site 323850000529 L11 interface [polypeptide binding]; other site 323850000530 putative EF-Tu interaction site [polypeptide binding]; other site 323850000531 putative EF-G interaction site [polypeptide binding]; other site 323850000532 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 323850000533 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 323850000534 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 323850000535 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 323850000536 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 323850000537 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 323850000538 RPB3 interaction site [polypeptide binding]; other site 323850000539 RPB1 interaction site [polypeptide binding]; other site 323850000540 RPB11 interaction site [polypeptide binding]; other site 323850000541 RPB10 interaction site [polypeptide binding]; other site 323850000542 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 323850000543 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 323850000544 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 323850000545 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 323850000546 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 323850000547 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 323850000548 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 323850000549 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 323850000550 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 323850000551 DNA binding site [nucleotide binding] 323850000552 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 323850000553 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 323850000554 S17 interaction site [polypeptide binding]; other site 323850000555 S8 interaction site; other site 323850000556 16S rRNA interaction site [nucleotide binding]; other site 323850000557 streptomycin interaction site [chemical binding]; other site 323850000558 23S rRNA interaction site [nucleotide binding]; other site 323850000559 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 323850000560 30S ribosomal protein S7; Validated; Region: PRK05302 323850000561 elongation factor G; Reviewed; Region: PRK00007 323850000562 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 323850000563 G1 box; other site 323850000564 putative GEF interaction site [polypeptide binding]; other site 323850000565 GTP/Mg2+ binding site [chemical binding]; other site 323850000566 Switch I region; other site 323850000567 G2 box; other site 323850000568 G3 box; other site 323850000569 Switch II region; other site 323850000570 G4 box; other site 323850000571 G5 box; other site 323850000572 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 323850000573 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 323850000574 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 323850000575 elongation factor Tu; Reviewed; Region: PRK00049 323850000576 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 323850000577 G1 box; other site 323850000578 GEF interaction site [polypeptide binding]; other site 323850000579 GTP/Mg2+ binding site [chemical binding]; other site 323850000580 Switch I region; other site 323850000581 G2 box; other site 323850000582 G3 box; other site 323850000583 Switch II region; other site 323850000584 G4 box; other site 323850000585 G5 box; other site 323850000586 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 323850000587 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 323850000588 Antibiotic Binding Site [chemical binding]; other site 323850000589 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 323850000590 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 323850000591 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 323850000592 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 323850000593 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 323850000594 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 323850000595 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 323850000596 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 323850000597 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 323850000598 putative translocon binding site; other site 323850000599 protein-rRNA interface [nucleotide binding]; other site 323850000600 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 323850000601 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 323850000602 G-X-X-G motif; other site 323850000603 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 323850000604 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 323850000605 23S rRNA interface [nucleotide binding]; other site 323850000606 5S rRNA interface [nucleotide binding]; other site 323850000607 putative antibiotic binding site [chemical binding]; other site 323850000608 L25 interface [polypeptide binding]; other site 323850000609 L27 interface [polypeptide binding]; other site 323850000610 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 323850000611 23S rRNA interface [nucleotide binding]; other site 323850000612 putative translocon interaction site; other site 323850000613 signal recognition particle (SRP54) interaction site; other site 323850000614 L23 interface [polypeptide binding]; other site 323850000615 trigger factor interaction site; other site 323850000616 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 323850000617 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 323850000618 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 323850000619 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 323850000620 RNA binding site [nucleotide binding]; other site 323850000621 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 323850000622 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 323850000623 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 323850000624 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 323850000625 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 323850000626 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 323850000627 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 323850000628 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 323850000629 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 323850000630 23S rRNA interface [nucleotide binding]; other site 323850000631 L21e interface [polypeptide binding]; other site 323850000632 5S rRNA interface [nucleotide binding]; other site 323850000633 L27 interface [polypeptide binding]; other site 323850000634 L5 interface [polypeptide binding]; other site 323850000635 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 323850000636 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 323850000637 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 323850000638 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 323850000639 23S rRNA binding site [nucleotide binding]; other site 323850000640 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 323850000641 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 323850000642 SecY translocase; Region: SecY; pfam00344 323850000643 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 323850000644 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 323850000645 30S ribosomal protein S13; Region: bact_S13; TIGR03631 323850000646 30S ribosomal protein S11; Validated; Region: PRK05309 323850000647 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 323850000648 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 323850000649 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 323850000650 RNA binding surface [nucleotide binding]; other site 323850000651 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 323850000652 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 323850000653 alphaNTD homodimer interface [polypeptide binding]; other site 323850000654 alphaNTD - beta interaction site [polypeptide binding]; other site 323850000655 alphaNTD - beta' interaction site [polypeptide binding]; other site 323850000656 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 323850000657 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 323850000658 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 323850000659 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 323850000660 heme exporter protein CcmC; Region: ccmC; TIGR01191 323850000661 heme exporter protein CcmB; Region: ccmB; TIGR01190 323850000662 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 323850000663 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 323850000664 Walker A/P-loop; other site 323850000665 ATP binding site [chemical binding]; other site 323850000666 Q-loop/lid; other site 323850000667 ABC transporter signature motif; other site 323850000668 Walker B; other site 323850000669 D-loop; other site 323850000670 H-loop/switch region; other site 323850000671 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 323850000672 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 323850000673 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 323850000674 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 323850000675 binding surface 323850000676 TPR motif; other site 323850000677 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 323850000678 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 323850000679 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 323850000680 catalytic residues [active] 323850000681 central insert; other site 323850000682 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 323850000683 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 323850000684 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 323850000685 catalytic residues [active] 323850000686 Protein of unknown function (DUF796); Region: DUF796; pfam05638 323850000687 competence damage-inducible protein A; Provisional; Region: PRK00549 323850000688 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 323850000689 putative MPT binding site; other site 323850000690 Competence-damaged protein; Region: CinA; pfam02464 323850000691 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 323850000692 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 323850000693 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 323850000694 acetylornithine deacetylase; Provisional; Region: PRK05111 323850000695 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 323850000696 metal binding site [ion binding]; metal-binding site 323850000697 putative dimer interface [polypeptide binding]; other site 323850000698 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 323850000699 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 323850000700 acetylglutamate kinase; Provisional; Region: PRK00942 323850000701 nucleotide binding site [chemical binding]; other site 323850000702 substrate binding site [chemical binding]; other site 323850000703 ornithine carbamoyltransferase; Provisional; Region: PRK14805 323850000704 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 323850000705 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 323850000706 argininosuccinate synthase; Provisional; Region: PRK13820 323850000707 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 323850000708 ANP binding site [chemical binding]; other site 323850000709 Substrate Binding Site II [chemical binding]; other site 323850000710 Substrate Binding Site I [chemical binding]; other site 323850000711 argininosuccinate lyase; Provisional; Region: PRK04833 323850000712 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 323850000713 active sites [active] 323850000714 tetramer interface [polypeptide binding]; other site 323850000715 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 323850000716 Transglycosylase; Region: Transgly; pfam00912 323850000717 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 323850000718 Cell division protein FtsA; Region: FtsA; cl17206 323850000719 Competence protein A; Region: Competence_A; pfam11104 323850000720 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 323850000721 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 323850000722 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 323850000723 Pilus assembly protein, PilO; Region: PilO; pfam04350 323850000724 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 323850000725 Pilus assembly protein, PilP; Region: PilP; pfam04351 323850000726 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 323850000727 Secretin and TonB N terminus short domain; Region: STN; smart00965 323850000728 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 323850000729 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 323850000730 shikimate kinase; Reviewed; Region: aroK; PRK00131 323850000731 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 323850000732 ADP binding site [chemical binding]; other site 323850000733 magnesium binding site [ion binding]; other site 323850000734 putative shikimate binding site; other site 323850000735 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 323850000736 active site 323850000737 dimer interface [polypeptide binding]; other site 323850000738 metal binding site [ion binding]; metal-binding site 323850000739 AAA domain; Region: AAA_22; pfam13401 323850000740 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 323850000741 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 323850000742 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 323850000743 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 323850000744 substrate binding site [chemical binding]; other site 323850000745 hexamer interface [polypeptide binding]; other site 323850000746 metal binding site [ion binding]; metal-binding site 323850000747 phosphoglycolate phosphatase; Provisional; Region: PRK13222 323850000748 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 323850000749 motif II; other site 323850000750 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 323850000751 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 323850000752 active site 323850000753 HIGH motif; other site 323850000754 dimer interface [polypeptide binding]; other site 323850000755 KMSKS motif; other site 323850000756 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 323850000757 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850000758 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 323850000759 dimerization interface [polypeptide binding]; other site 323850000760 substrate binding pocket [chemical binding]; other site 323850000761 EamA-like transporter family; Region: EamA; pfam00892 323850000762 BON domain; Region: BON; pfam04972 323850000763 BON domain; Region: BON; pfam04972 323850000764 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 323850000765 dimer interface [polypeptide binding]; other site 323850000766 active site 323850000767 hypothetical protein; Reviewed; Region: PRK12497 323850000768 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 323850000769 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 323850000770 putative ligand binding site [chemical binding]; other site 323850000771 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 323850000772 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 323850000773 putative SAM binding site [chemical binding]; other site 323850000774 putative homodimer interface [polypeptide binding]; other site 323850000775 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 323850000776 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323850000777 substrate binding pocket [chemical binding]; other site 323850000778 hinge residues; other site 323850000779 Surface antigen; Region: Bac_surface_Ag; pfam01103 323850000780 Uncharacterized conserved protein [Function unknown]; Region: COG2966 323850000781 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 323850000782 Uncharacterized conserved protein [Function unknown]; Region: COG3610 323850000783 hypothetical protein; Provisional; Region: PRK01254 323850000784 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 323850000785 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 323850000786 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 323850000787 Uncharacterized conserved protein [Function unknown]; Region: COG3339 323850000788 Isochorismatase family; Region: Isochorismatase; pfam00857 323850000789 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 323850000790 catalytic triad [active] 323850000791 conserved cis-peptide bond; other site 323850000792 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850000793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850000794 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 323850000795 putative effector binding pocket; other site 323850000796 dimerization interface [polypeptide binding]; other site 323850000797 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 323850000798 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 323850000799 dimerization interface [polypeptide binding]; other site 323850000800 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850000801 dimer interface [polypeptide binding]; other site 323850000802 putative CheW interface [polypeptide binding]; other site 323850000803 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 323850000804 trimer interface [polypeptide binding]; other site 323850000805 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 323850000806 eyelet of channel; other site 323850000807 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 323850000808 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 323850000809 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 323850000810 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 323850000811 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 323850000812 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 323850000813 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 323850000814 putative [4Fe-4S] binding site [ion binding]; other site 323850000815 putative molybdopterin cofactor binding site [chemical binding]; other site 323850000816 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 323850000817 molybdopterin cofactor binding site; other site 323850000818 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850000819 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850000820 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 323850000821 dimerization interface [polypeptide binding]; other site 323850000822 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 323850000823 4Fe-4S binding domain; Region: Fer4; pfam00037 323850000824 tetrathionate reductase subunit A; Provisional; Region: PRK14991 323850000825 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 323850000826 putative [Fe4-S4] binding site [ion binding]; other site 323850000827 putative molybdopterin cofactor binding site [chemical binding]; other site 323850000828 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 323850000829 molybdopterin cofactor binding site; other site 323850000830 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 323850000831 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 323850000832 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850000833 Coenzyme A binding pocket [chemical binding]; other site 323850000834 Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator; Region: HTH_Cfa; cd04789 323850000835 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 323850000836 DNA binding residues [nucleotide binding] 323850000837 putative dimer interface [polypeptide binding]; other site 323850000838 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 323850000839 Methyltransferase domain; Region: Methyltransf_31; pfam13847 323850000840 S-adenosylmethionine binding site [chemical binding]; other site 323850000841 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 323850000842 active site 323850000843 DNA binding site [nucleotide binding] 323850000844 Int/Topo IB signature motif; other site 323850000845 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 323850000846 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 323850000847 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323850000848 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850000849 Ion channel; Region: Ion_trans_2; pfam07885 323850000850 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 323850000851 putative amphipathic alpha helix; other site 323850000852 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 323850000853 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323850000854 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 323850000855 Uncharacterized conserved protein [Function unknown]; Region: COG0397 323850000856 hypothetical protein; Validated; Region: PRK00029 323850000857 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 323850000858 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 323850000859 serine/threonine protein kinase; Provisional; Region: PRK11768 323850000860 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 323850000861 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 323850000862 catalytic residues [active] 323850000863 hinge region; other site 323850000864 alpha helical domain; other site 323850000865 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 323850000866 Protein of unknown function (DUF904); Region: DUF904; cl11531 323850000867 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; pfam07073 323850000868 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 323850000869 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 323850000870 Cupin domain; Region: Cupin_2; cl17218 323850000871 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 323850000872 heme-binding residues [chemical binding]; other site 323850000873 L-aspartate oxidase; Provisional; Region: PRK06175 323850000874 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 323850000875 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323850000876 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323850000877 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 323850000878 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 323850000879 homodimer interface [polypeptide binding]; other site 323850000880 substrate-cofactor binding pocket; other site 323850000881 catalytic residue [active] 323850000882 Transcriptional regulators [Transcription]; Region: GntR; COG1802 323850000883 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 323850000884 DNA-binding site [nucleotide binding]; DNA binding site 323850000885 FCD domain; Region: FCD; pfam07729 323850000886 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 323850000887 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 323850000888 putative acyl-acceptor binding pocket; other site 323850000889 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 323850000890 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 323850000891 putative acyl-acceptor binding pocket; other site 323850000892 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 323850000893 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 323850000894 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 323850000895 Walker A motif; other site 323850000896 ATP binding site [chemical binding]; other site 323850000897 Walker B motif; other site 323850000898 arginine finger; other site 323850000899 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 323850000900 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 323850000901 Domain of unknown function DUF21; Region: DUF21; pfam01595 323850000902 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 323850000903 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 323850000904 Transporter associated domain; Region: CorC_HlyC; smart01091 323850000905 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850000906 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850000907 metal binding site [ion binding]; metal-binding site 323850000908 active site 323850000909 I-site; other site 323850000910 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323850000911 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 323850000912 substrate binding pocket [chemical binding]; other site 323850000913 membrane-bound complex binding site; other site 323850000914 hinge residues; other site 323850000915 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850000916 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 323850000917 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 323850000918 putative dimerization interface [polypeptide binding]; other site 323850000919 ketol-acid reductoisomerase; Validated; Region: PRK05225 323850000920 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 323850000921 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 323850000922 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 323850000923 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 323850000924 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 323850000925 PYR/PP interface [polypeptide binding]; other site 323850000926 dimer interface [polypeptide binding]; other site 323850000927 TPP binding site [chemical binding]; other site 323850000928 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 323850000929 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 323850000930 TPP-binding site [chemical binding]; other site 323850000931 dimer interface [polypeptide binding]; other site 323850000932 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 323850000933 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 323850000934 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 323850000935 homodimer interface [polypeptide binding]; other site 323850000936 substrate-cofactor binding pocket; other site 323850000937 catalytic residue [active] 323850000938 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 323850000939 threonine dehydratase; Reviewed; Region: PRK09224 323850000940 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 323850000941 tetramer interface [polypeptide binding]; other site 323850000942 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850000943 catalytic residue [active] 323850000944 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 323850000945 putative Ile/Val binding site [chemical binding]; other site 323850000946 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 323850000947 putative Ile/Val binding site [chemical binding]; other site 323850000948 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 323850000949 homodimer interface [polypeptide binding]; other site 323850000950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850000951 catalytic residue [active] 323850000952 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 323850000953 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 323850000954 putative dimer interface [polypeptide binding]; other site 323850000955 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 323850000956 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 323850000957 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323850000958 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323850000959 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 323850000960 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 323850000961 Na2 binding site [ion binding]; other site 323850000962 putative substrate binding site 1 [chemical binding]; other site 323850000963 Na binding site 1 [ion binding]; other site 323850000964 putative substrate binding site 2 [chemical binding]; other site 323850000965 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 323850000966 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 323850000967 dimerization interface [polypeptide binding]; other site 323850000968 putative DNA binding site [nucleotide binding]; other site 323850000969 putative Zn2+ binding site [ion binding]; other site 323850000970 AsnC family; Region: AsnC_trans_reg; pfam01037 323850000971 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 323850000972 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 323850000973 active site 323850000974 inner membrane protein; Provisional; Region: PRK11715 323850000975 Membrane fusogenic activity; Region: BMFP; pfam04380 323850000976 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 323850000977 Part of AAA domain; Region: AAA_19; pfam13245 323850000978 Family description; Region: UvrD_C_2; pfam13538 323850000979 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 323850000980 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 323850000981 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 323850000982 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 323850000983 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850000984 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850000985 metal binding site [ion binding]; metal-binding site 323850000986 active site 323850000987 I-site; other site 323850000988 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 323850000989 HAMP domain; Region: HAMP; pfam00672 323850000990 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850000991 metal binding site [ion binding]; metal-binding site 323850000992 active site 323850000993 I-site; other site 323850000994 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 323850000995 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 323850000996 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 323850000997 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323850000998 ligand binding site [chemical binding]; other site 323850000999 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 323850001000 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 323850001001 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323850001002 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850001003 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 323850001004 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 323850001005 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323850001006 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 323850001007 Walker A/P-loop; other site 323850001008 ATP binding site [chemical binding]; other site 323850001009 Q-loop/lid; other site 323850001010 ABC transporter signature motif; other site 323850001011 Walker B; other site 323850001012 D-loop; other site 323850001013 H-loop/switch region; other site 323850001014 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 323850001015 metal ion-dependent adhesion site (MIDAS); other site 323850001016 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 323850001017 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 323850001018 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001019 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001020 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001021 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001022 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001023 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001024 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 323850001025 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 323850001026 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 323850001027 HemY protein N-terminus; Region: HemY_N; pfam07219 323850001028 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 323850001029 HemX; Region: HemX; pfam04375 323850001030 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 323850001031 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 323850001032 active site 323850001033 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 323850001034 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 323850001035 domain interfaces; other site 323850001036 active site 323850001037 adenylate cyclase; Provisional; Region: cyaA; PRK09450 323850001038 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 323850001039 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 323850001040 Frataxin-like domain; Region: Frataxin_Cyay; pfam01491 323850001041 putative iron binding site [ion binding]; other site 323850001042 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 323850001043 diaminopimelate decarboxylase; Region: lysA; TIGR01048 323850001044 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 323850001045 active site 323850001046 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323850001047 substrate binding site [chemical binding]; other site 323850001048 catalytic residues [active] 323850001049 dimer interface [polypeptide binding]; other site 323850001050 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 323850001051 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 323850001052 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 323850001053 Protein of unknown function, DUF484; Region: DUF484; cl17449 323850001054 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 323850001055 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 323850001056 active site 323850001057 Int/Topo IB signature motif; other site 323850001058 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 323850001059 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 323850001060 motif II; other site 323850001061 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 323850001062 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 323850001063 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 323850001064 Hemerythrin-like domain; Region: Hr-like; cd12108 323850001065 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 323850001066 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 323850001067 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 323850001068 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 323850001069 FMN binding site [chemical binding]; other site 323850001070 active site 323850001071 catalytic residues [active] 323850001072 substrate binding site [chemical binding]; other site 323850001073 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 323850001074 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 323850001075 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13554 323850001076 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 323850001077 Iron-sulfur protein interface; other site 323850001078 proximal heme binding site [chemical binding]; other site 323850001079 distal heme binding site [chemical binding]; other site 323850001080 dimer interface [polypeptide binding]; other site 323850001081 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 323850001082 Iron-sulfur protein interface; other site 323850001083 proximal heme binding site [chemical binding]; other site 323850001084 distal heme binding site [chemical binding]; other site 323850001085 dimer interface [polypeptide binding]; other site 323850001086 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 323850001087 L-aspartate oxidase; Provisional; Region: PRK06175 323850001088 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 323850001089 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 323850001090 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 323850001091 catalytic loop [active] 323850001092 iron binding site [ion binding]; other site 323850001093 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850001094 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850001095 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 323850001096 putative effector binding pocket; other site 323850001097 dimerization interface [polypeptide binding]; other site 323850001098 transcription termination factor Rho; Provisional; Region: rho; PRK09376 323850001099 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 323850001100 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 323850001101 RNA binding site [nucleotide binding]; other site 323850001102 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 323850001103 multimer interface [polypeptide binding]; other site 323850001104 Walker A motif; other site 323850001105 ATP binding site [chemical binding]; other site 323850001106 Walker B motif; other site 323850001107 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 323850001108 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 323850001109 catalytic residues [active] 323850001110 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 323850001111 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 323850001112 ATP binding site [chemical binding]; other site 323850001113 Mg++ binding site [ion binding]; other site 323850001114 motif III; other site 323850001115 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 323850001116 nucleotide binding region [chemical binding]; other site 323850001117 ATP-binding site [chemical binding]; other site 323850001118 exopolyphosphatase; Region: exo_poly_only; TIGR03706 323850001119 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 323850001120 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 323850001121 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 323850001122 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 323850001123 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 323850001124 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 323850001125 catalytic residues [active] 323850001126 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 323850001127 metal binding site [ion binding]; metal-binding site 323850001128 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 323850001129 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 323850001130 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 323850001131 catalytic residues [active] 323850001132 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 323850001133 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 323850001134 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 323850001135 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 323850001136 active site residue [active] 323850001137 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 323850001138 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 323850001139 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 323850001140 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 323850001141 TPR motif; other site 323850001142 binding surface 323850001143 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 323850001144 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 323850001145 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 323850001146 NosL; Region: NosL; pfam05573 323850001147 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 323850001148 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323850001149 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 323850001150 Walker A/P-loop; other site 323850001151 ATP binding site [chemical binding]; other site 323850001152 Q-loop/lid; other site 323850001153 ABC transporter signature motif; other site 323850001154 Walker B; other site 323850001155 D-loop; other site 323850001156 H-loop/switch region; other site 323850001157 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 323850001158 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; cl17355 323850001159 DNA binding site [nucleotide binding] 323850001160 FMN reductase; Validated; Region: fre; PRK08051 323850001161 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 323850001162 FAD binding pocket [chemical binding]; other site 323850001163 FAD binding motif [chemical binding]; other site 323850001164 phosphate binding motif [ion binding]; other site 323850001165 beta-alpha-beta structure motif; other site 323850001166 NAD binding pocket [chemical binding]; other site 323850001167 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 323850001168 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 323850001169 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 323850001170 Catalytic site [active] 323850001171 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 323850001172 dUMP phosphatase; Provisional; Region: PRK09449 323850001173 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 323850001174 motif II; other site 323850001175 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 323850001176 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 323850001177 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 323850001178 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 323850001179 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 323850001180 D-pathway; other site 323850001181 Putative ubiquinol binding site [chemical binding]; other site 323850001182 Low-spin heme (heme b) binding site [chemical binding]; other site 323850001183 Putative water exit pathway; other site 323850001184 Binuclear center (heme o3/CuB) [ion binding]; other site 323850001185 K-pathway; other site 323850001186 Putative proton exit pathway; other site 323850001187 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 323850001188 Subunit I/III interface [polypeptide binding]; other site 323850001189 Subunit III/IV interface [polypeptide binding]; other site 323850001190 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 323850001191 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 323850001192 UbiA prenyltransferase family; Region: UbiA; pfam01040 323850001193 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850001194 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 323850001195 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850001196 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 323850001197 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 323850001198 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 323850001199 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 323850001200 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 323850001201 Walker A motif; other site 323850001202 ATP binding site [chemical binding]; other site 323850001203 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 323850001204 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 323850001205 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 323850001206 active site 323850001207 HslU subunit interaction site [polypeptide binding]; other site 323850001208 major curlin subunit; Provisional; Region: csgA; PRK10051 323850001209 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 323850001210 Sporulation related domain; Region: SPOR; pfam05036 323850001211 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 323850001212 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 323850001213 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 323850001214 active site 323850001215 HIGH motif; other site 323850001216 KMSK motif region; other site 323850001217 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 323850001218 tRNA binding surface [nucleotide binding]; other site 323850001219 anticodon binding site; other site 323850001220 primosome assembly protein PriA; Validated; Region: PRK05580 323850001221 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 323850001222 ATP binding site [chemical binding]; other site 323850001223 putative Mg++ binding site [ion binding]; other site 323850001224 helicase superfamily c-terminal domain; Region: HELICc; smart00490 323850001225 FimV N-terminal domain; Region: FimV_core; TIGR03505 323850001226 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 323850001227 Staphylococcal nuclease homologues; Region: SNc; smart00318 323850001228 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 323850001229 Catalytic site; other site 323850001230 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 323850001231 Malic enzyme, N-terminal domain; Region: malic; pfam00390 323850001232 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 323850001233 putative NAD(P) binding site [chemical binding]; other site 323850001234 regulatory protein CsrD; Provisional; Region: PRK11059 323850001235 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850001236 I-site; other site 323850001237 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 323850001238 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 323850001239 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 323850001240 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 323850001241 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 323850001242 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 323850001243 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 323850001244 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 323850001245 Walker A motif; other site 323850001246 ATP binding site [chemical binding]; other site 323850001247 Walker B motif; other site 323850001248 TPR repeat; Region: TPR_11; pfam13414 323850001249 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 323850001250 binding surface 323850001251 TPR motif; other site 323850001252 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 323850001253 binding surface 323850001254 TPR motif; other site 323850001255 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 323850001256 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 323850001257 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 323850001258 Walker A motif; other site 323850001259 ATP binding site [chemical binding]; other site 323850001260 Walker B motif; other site 323850001261 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 323850001262 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323850001263 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323850001264 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 323850001265 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 323850001266 rod shape-determining protein MreB; Provisional; Region: PRK13927 323850001267 MreB and similar proteins; Region: MreB_like; cd10225 323850001268 nucleotide binding site [chemical binding]; other site 323850001269 Mg binding site [ion binding]; other site 323850001270 putative protofilament interaction site [polypeptide binding]; other site 323850001271 RodZ interaction site [polypeptide binding]; other site 323850001272 rod shape-determining protein MreC; Region: mreC; TIGR00219 323850001273 rod shape-determining protein MreC; Region: MreC; pfam04085 323850001274 rod shape-determining protein MreD; Region: MreD; cl01087 323850001275 Maf-like protein; Region: Maf; pfam02545 323850001276 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 323850001277 active site 323850001278 dimer interface [polypeptide binding]; other site 323850001279 ribonuclease G; Provisional; Region: PRK11712 323850001280 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 323850001281 homodimer interface [polypeptide binding]; other site 323850001282 oligonucleotide binding site [chemical binding]; other site 323850001283 TIGR02099 family protein; Region: TIGR02099 323850001284 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 323850001285 nitrilase; Region: PLN02798 323850001286 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 323850001287 putative active site [active] 323850001288 catalytic triad [active] 323850001289 dimer interface [polypeptide binding]; other site 323850001290 protease TldD; Provisional; Region: tldD; PRK10735 323850001291 Outer membrane efflux protein; Region: OEP; pfam02321 323850001292 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 323850001293 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323850001294 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 323850001295 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850001296 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 323850001297 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 323850001298 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 323850001299 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 323850001300 ABC-2 type transporter; Region: ABC2_membrane; cl17235 323850001301 hypothetical protein; Provisional; Region: PRK05255 323850001302 peptidase PmbA; Provisional; Region: PRK11040 323850001303 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 323850001304 dimerization interface [polypeptide binding]; other site 323850001305 putative DNA binding site [nucleotide binding]; other site 323850001306 putative Zn2+ binding site [ion binding]; other site 323850001307 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 323850001308 arsenical-resistance protein; Region: acr3; TIGR00832 323850001309 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 323850001310 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 323850001311 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 323850001312 Major Facilitator Superfamily; Region: MFS_1; pfam07690 323850001313 PspC domain; Region: PspC; pfam04024 323850001314 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 323850001315 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 323850001316 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 323850001317 DNA binding residues [nucleotide binding] 323850001318 putative dimer interface [polypeptide binding]; other site 323850001319 putative metal binding residues [ion binding]; other site 323850001320 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 323850001321 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 323850001322 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 323850001323 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 323850001324 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 323850001325 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 323850001326 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 323850001327 Walker A/P-loop; other site 323850001328 ATP binding site [chemical binding]; other site 323850001329 Q-loop/lid; other site 323850001330 ABC transporter signature motif; other site 323850001331 Walker B; other site 323850001332 D-loop; other site 323850001333 H-loop/switch region; other site 323850001334 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 323850001335 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850001336 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 323850001337 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 323850001338 IHF dimer interface [polypeptide binding]; other site 323850001339 IHF - DNA interface [nucleotide binding]; other site 323850001340 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 323850001341 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 323850001342 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 323850001343 FOG: CBS domain [General function prediction only]; Region: COG0517 323850001344 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 323850001345 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850001346 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850001347 metal binding site [ion binding]; metal-binding site 323850001348 active site 323850001349 TraB family; Region: TraB; pfam01963 323850001350 CheD chemotactic sensory transduction; Region: CheD; cl00810 323850001351 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 323850001352 S-adenosylmethionine binding site [chemical binding]; other site 323850001353 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 323850001354 active site 2 [active] 323850001355 active site 1 [active] 323850001356 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 323850001357 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 323850001358 active site 323850001359 catalytic tetrad [active] 323850001360 formate--tetrahydrofolate ligase; Provisional; Region: PRK13506 323850001361 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 323850001362 Potassium binding sites [ion binding]; other site 323850001363 Cesium cation binding sites [ion binding]; other site 323850001364 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 323850001365 Mechanosensitive ion channel; Region: MS_channel; pfam00924 323850001366 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 323850001367 Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_c; cd01145 323850001368 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 323850001369 putative ligand binding site [chemical binding]; other site 323850001370 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 323850001371 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 323850001372 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 323850001373 putative acyl-acceptor binding pocket; other site 323850001374 RNase E inhibitor protein; Provisional; Region: PRK11191 323850001375 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 323850001376 PAS fold; Region: PAS; pfam00989 323850001377 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850001378 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850001379 metal binding site [ion binding]; metal-binding site 323850001380 active site 323850001381 I-site; other site 323850001382 Response regulator receiver domain; Region: Response_reg; pfam00072 323850001383 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 323850001384 active site 323850001385 phosphorylation site [posttranslational modification] 323850001386 intermolecular recognition site; other site 323850001387 dimerization interface [polypeptide binding]; other site 323850001388 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 323850001389 enoyl-CoA hydratase; Provisional; Region: PRK07509 323850001390 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 323850001391 substrate binding site [chemical binding]; other site 323850001392 oxyanion hole (OAH) forming residues; other site 323850001393 trimer interface [polypeptide binding]; other site 323850001394 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 323850001395 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 323850001396 ATP-dependent helicase HepA; Validated; Region: PRK04914 323850001397 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 323850001398 ATP binding site [chemical binding]; other site 323850001399 putative Mg++ binding site [ion binding]; other site 323850001400 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 323850001401 nucleotide binding region [chemical binding]; other site 323850001402 ATP-binding site [chemical binding]; other site 323850001403 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 323850001404 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 323850001405 putative active site [active] 323850001406 PhoH-like protein; Region: PhoH; pfam02562 323850001407 Cache domain; Region: Cache_1; pfam02743 323850001408 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 323850001409 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 323850001410 putative active site [active] 323850001411 heme pocket [chemical binding]; other site 323850001412 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 323850001413 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 323850001414 putative active site [active] 323850001415 heme pocket [chemical binding]; other site 323850001416 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 323850001417 dimer interface [polypeptide binding]; other site 323850001418 phosphorylation site [posttranslational modification] 323850001419 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 323850001420 ATP binding site [chemical binding]; other site 323850001421 Mg2+ binding site [ion binding]; other site 323850001422 G-X-G motif; other site 323850001423 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 323850001424 Response regulator receiver domain; Region: Response_reg; pfam00072 323850001425 active site 323850001426 phosphorylation site [posttranslational modification] 323850001427 intermolecular recognition site; other site 323850001428 dimerization interface [polypeptide binding]; other site 323850001429 Response regulator receiver domain; Region: Response_reg; pfam00072 323850001430 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 323850001431 active site 323850001432 phosphorylation site [posttranslational modification] 323850001433 intermolecular recognition site; other site 323850001434 dimerization interface [polypeptide binding]; other site 323850001435 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 323850001436 active site 323850001437 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 323850001438 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323850001439 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323850001440 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850001441 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850001442 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850001443 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 323850001444 putative effector binding pocket; other site 323850001445 dimerization interface [polypeptide binding]; other site 323850001446 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 323850001447 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 323850001448 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 323850001449 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 323850001450 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 323850001451 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 323850001452 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 323850001453 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 323850001454 oligomerisation interface [polypeptide binding]; other site 323850001455 mobile loop; other site 323850001456 roof hairpin; other site 323850001457 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 323850001458 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 323850001459 ring oligomerisation interface [polypeptide binding]; other site 323850001460 ATP/Mg binding site [chemical binding]; other site 323850001461 stacking interactions; other site 323850001462 hinge regions; other site 323850001463 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 323850001464 Uncharacterized conserved protein [Function unknown]; Region: COG1432 323850001465 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 323850001466 putative metal binding site [ion binding]; other site 323850001467 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 323850001468 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 323850001469 non-specific DNA binding site [nucleotide binding]; other site 323850001470 salt bridge; other site 323850001471 sequence-specific DNA binding site [nucleotide binding]; other site 323850001472 HipA N-terminal domain; Region: Couple_hipA; pfam13657 323850001473 HipA-like N-terminal domain; Region: HipA_N; pfam07805 323850001474 HipA-like C-terminal domain; Region: HipA_C; pfam07804 323850001475 Pentapeptide repeats (8 copies); Region: Pentapeptide_2; pfam01469 323850001476 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323850001477 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 323850001478 Surface antigen; Region: Bac_surface_Ag; pfam01103 323850001479 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 323850001480 DNA-binding site [nucleotide binding]; DNA binding site 323850001481 RNA-binding motif; other site 323850001482 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 323850001483 Predicted permeases [General function prediction only]; Region: COG0701 323850001484 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 323850001485 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 323850001486 putative DNA binding site [nucleotide binding]; other site 323850001487 putative Zn2+ binding site [ion binding]; other site 323850001488 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 323850001489 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323850001490 Protein of unknown function (DUF2999); Region: DUF2999; pfam11212 323850001491 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323850001492 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850001493 dimer interface [polypeptide binding]; other site 323850001494 putative CheW interface [polypeptide binding]; other site 323850001495 Hemerythrin; Region: Hemerythrin; cd12107 323850001496 Fe binding site [ion binding]; other site 323850001497 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 323850001498 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 323850001499 putative transporter; Provisional; Region: PRK11660 323850001500 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 323850001501 Sulfate transporter family; Region: Sulfate_transp; pfam00916 323850001502 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 323850001503 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 323850001504 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 323850001505 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 323850001506 active site 323850001507 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 323850001508 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; cl17257 323850001509 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 323850001510 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 323850001511 catalytic residues [active] 323850001512 NnrS protein; Region: NnrS; pfam05940 323850001513 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 323850001514 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850001515 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850001516 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 323850001517 putative effector binding pocket; other site 323850001518 dimerization interface [polypeptide binding]; other site 323850001519 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 323850001520 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 323850001521 FMN binding site [chemical binding]; other site 323850001522 active site 323850001523 substrate binding site [chemical binding]; other site 323850001524 catalytic residue [active] 323850001525 Protein of unknown function (DUF1679); Region: DUF1679; pfam07914 323850001526 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001527 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001528 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001529 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001530 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001531 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001532 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001533 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001534 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001535 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001536 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001537 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001538 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001539 VCBS repeat; Region: VCBS_repeat; TIGR01965 323850001540 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 323850001541 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 323850001542 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 323850001543 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323850001544 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850001545 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 323850001546 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323850001547 Walker A/P-loop; other site 323850001548 ATP binding site [chemical binding]; other site 323850001549 Q-loop/lid; other site 323850001550 ABC transporter signature motif; other site 323850001551 Walker B; other site 323850001552 D-loop; other site 323850001553 H-loop/switch region; other site 323850001554 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 323850001555 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323850001556 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323850001557 Walker A/P-loop; other site 323850001558 ATP binding site [chemical binding]; other site 323850001559 Q-loop/lid; other site 323850001560 ABC transporter signature motif; other site 323850001561 Walker B; other site 323850001562 D-loop; other site 323850001563 H-loop/switch region; other site 323850001564 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 323850001565 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 323850001566 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 323850001567 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 323850001568 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 323850001569 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 323850001570 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 323850001571 dimerization interface [polypeptide binding]; other site 323850001572 DNA binding site [nucleotide binding] 323850001573 corepressor binding sites; other site 323850001574 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 323850001575 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 323850001576 homodimer interface [polypeptide binding]; other site 323850001577 substrate-cofactor binding pocket; other site 323850001578 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850001579 catalytic residue [active] 323850001580 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 323850001581 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 323850001582 nucleotide binding site [chemical binding]; other site 323850001583 substrate binding site [chemical binding]; other site 323850001584 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 323850001585 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 323850001586 FAD binding site [chemical binding]; other site 323850001587 Cytochrome c; Region: Cytochrom_C; cl11414 323850001588 Cytochrome c; Region: Cytochrom_C; cl11414 323850001589 Cytochrome c [Energy production and conversion]; Region: COG3258 323850001590 Cytochrome c; Region: Cytochrom_C; pfam00034 323850001591 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 323850001592 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323850001593 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 323850001594 TPR motif; other site 323850001595 binding surface 323850001596 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323850001597 Sel1-like repeats; Region: SEL1; smart00671 323850001598 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323850001599 Sel1-like repeats; Region: SEL1; smart00671 323850001600 Predicted dehydrogenase [General function prediction only]; Region: COG0579 323850001601 hydroxyglutarate oxidase; Provisional; Region: PRK11728 323850001602 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 323850001603 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 323850001604 ATP binding site [chemical binding]; other site 323850001605 Mg++ binding site [ion binding]; other site 323850001606 motif III; other site 323850001607 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 323850001608 nucleotide binding region [chemical binding]; other site 323850001609 ATP-binding site [chemical binding]; other site 323850001610 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 323850001611 putative RNA binding site [nucleotide binding]; other site 323850001612 M28 Zn-Peptidases; Region: M28_like_2; cd05662 323850001613 Peptidase family M28; Region: Peptidase_M28; pfam04389 323850001614 metal binding site [ion binding]; metal-binding site 323850001615 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 323850001616 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 323850001617 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 323850001618 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 323850001619 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 323850001620 Major Facilitator Superfamily; Region: MFS_1; pfam07690 323850001621 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 323850001622 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 323850001623 dimer interface [polypeptide binding]; other site 323850001624 ssDNA binding site [nucleotide binding]; other site 323850001625 tetramer (dimer of dimers) interface [polypeptide binding]; other site 323850001626 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 323850001627 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 323850001628 FMN binding site [chemical binding]; other site 323850001629 active site 323850001630 catalytic residues [active] 323850001631 substrate binding site [chemical binding]; other site 323850001632 PspC domain; Region: PspC; cl00864 323850001633 enoyl-CoA hydratase; Provisional; Region: PRK06688 323850001634 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 323850001635 substrate binding site [chemical binding]; other site 323850001636 oxyanion hole (OAH) forming residues; other site 323850001637 trimer interface [polypeptide binding]; other site 323850001638 Protein of unknown function (DUF461); Region: DUF461; pfam04314 323850001639 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 323850001640 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 323850001641 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 323850001642 FtsJ-like methyltransferase; Region: FtsJ; cl17430 323850001643 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 323850001644 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 323850001645 dimer interface [polypeptide binding]; other site 323850001646 ADP-ribose binding site [chemical binding]; other site 323850001647 active site 323850001648 nudix motif; other site 323850001649 metal binding site [ion binding]; metal-binding site 323850001650 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 323850001651 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 323850001652 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 323850001653 active site 323850001654 metal binding site [ion binding]; metal-binding site 323850001655 hexamer interface [polypeptide binding]; other site 323850001656 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 323850001657 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 323850001658 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 323850001659 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 323850001660 ATP binding site [chemical binding]; other site 323850001661 Mg2+ binding site [ion binding]; other site 323850001662 G-X-G motif; other site 323850001663 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 323850001664 anchoring element; other site 323850001665 dimer interface [polypeptide binding]; other site 323850001666 ATP binding site [chemical binding]; other site 323850001667 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 323850001668 active site 323850001669 metal binding site [ion binding]; metal-binding site 323850001670 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 323850001671 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 323850001672 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 323850001673 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 323850001674 CAP-like domain; other site 323850001675 active site 323850001676 primary dimer interface [polypeptide binding]; other site 323850001677 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 323850001678 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 323850001679 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 323850001680 NAD binding site [chemical binding]; other site 323850001681 ligand binding site [chemical binding]; other site 323850001682 catalytic site [active] 323850001683 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 323850001684 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 323850001685 active site 323850001686 catalytic site [active] 323850001687 hypothetical protein; Provisional; Region: PRK11281 323850001688 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 323850001689 Mechanosensitive ion channel; Region: MS_channel; pfam00924 323850001690 rarD protein; Region: rarD; TIGR00688 323850001691 EamA-like transporter family; Region: EamA; pfam00892 323850001692 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 323850001693 GTPase RsgA; Reviewed; Region: PRK12288 323850001694 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 323850001695 RNA binding site [nucleotide binding]; other site 323850001696 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 323850001697 GTPase/Zn-binding domain interface [polypeptide binding]; other site 323850001698 GTP/Mg2+ binding site [chemical binding]; other site 323850001699 G4 box; other site 323850001700 G5 box; other site 323850001701 G1 box; other site 323850001702 Switch I region; other site 323850001703 G2 box; other site 323850001704 G3 box; other site 323850001705 Switch II region; other site 323850001706 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 323850001707 catalytic site [active] 323850001708 putative active site [active] 323850001709 putative substrate binding site [chemical binding]; other site 323850001710 dimer interface [polypeptide binding]; other site 323850001711 putative carbohydrate kinase; Provisional; Region: PRK10565 323850001712 Uncharacterized conserved protein [Function unknown]; Region: COG0062 323850001713 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 323850001714 putative substrate binding site [chemical binding]; other site 323850001715 putative ATP binding site [chemical binding]; other site 323850001716 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 323850001717 AMIN domain; Region: AMIN; pfam11741 323850001718 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 323850001719 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 323850001720 active site 323850001721 metal binding site [ion binding]; metal-binding site 323850001722 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 323850001723 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323850001724 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 323850001725 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 323850001726 Mg2+ binding site [ion binding]; other site 323850001727 G-X-G motif; other site 323850001728 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 323850001729 ATP binding site [chemical binding]; other site 323850001730 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 323850001731 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 323850001732 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cd02019 323850001733 active site 323850001734 bacterial Hfq-like; Region: Hfq; cd01716 323850001735 hexamer interface [polypeptide binding]; other site 323850001736 Sm1 motif; other site 323850001737 RNA binding site [nucleotide binding]; other site 323850001738 Sm2 motif; other site 323850001739 GTPase HflX; Provisional; Region: PRK11058 323850001740 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 323850001741 HflX GTPase family; Region: HflX; cd01878 323850001742 G1 box; other site 323850001743 GTP/Mg2+ binding site [chemical binding]; other site 323850001744 Switch I region; other site 323850001745 G2 box; other site 323850001746 G3 box; other site 323850001747 Switch II region; other site 323850001748 G4 box; other site 323850001749 G5 box; other site 323850001750 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 323850001751 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 323850001752 HflK protein; Region: hflK; TIGR01933 323850001753 FtsH protease regulator HflC; Provisional; Region: PRK11029 323850001754 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 323850001755 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 323850001756 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 323850001757 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 323850001758 [2Fe-2S] cluster binding site [ion binding]; other site 323850001759 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 323850001760 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 323850001761 Qi binding site; other site 323850001762 intrachain domain interface; other site 323850001763 interchain domain interface [polypeptide binding]; other site 323850001764 heme bH binding site [chemical binding]; other site 323850001765 heme bL binding site [chemical binding]; other site 323850001766 Qo binding site; other site 323850001767 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 323850001768 interchain domain interface [polypeptide binding]; other site 323850001769 intrachain domain interface; other site 323850001770 Qi binding site; other site 323850001771 Qo binding site; other site 323850001772 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 323850001773 stringent starvation protein A; Provisional; Region: sspA; PRK09481 323850001774 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 323850001775 C-terminal domain interface [polypeptide binding]; other site 323850001776 putative GSH binding site (G-site) [chemical binding]; other site 323850001777 dimer interface [polypeptide binding]; other site 323850001778 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 323850001779 dimer interface [polypeptide binding]; other site 323850001780 N-terminal domain interface [polypeptide binding]; other site 323850001781 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 323850001782 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 323850001783 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 323850001784 glutamine binding [chemical binding]; other site 323850001785 catalytic triad [active] 323850001786 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 323850001787 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323850001788 HDOD domain; Region: HDOD; pfam08668 323850001789 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 323850001790 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 323850001791 inhibitor-cofactor binding pocket; inhibition site 323850001792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850001793 catalytic residue [active] 323850001794 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 323850001795 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 323850001796 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 323850001797 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 323850001798 NAD(P) binding site [chemical binding]; other site 323850001799 catalytic residues [active] 323850001800 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 323850001801 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323850001802 HAMP domain; Region: HAMP; pfam00672 323850001803 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 323850001804 dimer interface [polypeptide binding]; other site 323850001805 phosphorylation site [posttranslational modification] 323850001806 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 323850001807 ATP binding site [chemical binding]; other site 323850001808 Mg2+ binding site [ion binding]; other site 323850001809 G-X-G motif; other site 323850001810 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323850001811 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 323850001812 active site 323850001813 phosphorylation site [posttranslational modification] 323850001814 intermolecular recognition site; other site 323850001815 dimerization interface [polypeptide binding]; other site 323850001816 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 323850001817 DNA binding site [nucleotide binding] 323850001818 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 323850001819 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 323850001820 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 323850001821 ligand binding site [chemical binding]; other site 323850001822 flexible hinge region; other site 323850001823 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 323850001824 putative switch regulator; other site 323850001825 non-specific DNA interactions [nucleotide binding]; other site 323850001826 DNA binding site [nucleotide binding] 323850001827 sequence specific DNA binding site [nucleotide binding]; other site 323850001828 putative cAMP binding site [chemical binding]; other site 323850001829 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323850001830 Sel1-like repeats; Region: SEL1; smart00671 323850001831 phosphoribulokinase; Provisional; Region: PRK15453 323850001832 active site 323850001833 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 323850001834 putative hydrolase; Provisional; Region: PRK10985 323850001835 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 323850001836 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 323850001837 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 323850001838 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 323850001839 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323850001840 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323850001841 ABC transporter; Region: ABC_tran_2; pfam12848 323850001842 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323850001843 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 323850001844 Cache domain; Region: Cache_1; pfam02743 323850001845 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323850001846 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850001847 dimer interface [polypeptide binding]; other site 323850001848 putative CheW interface [polypeptide binding]; other site 323850001849 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 323850001850 putative substrate translocation pore; other site 323850001851 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 323850001852 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 323850001853 ATP binding site [chemical binding]; other site 323850001854 Mg++ binding site [ion binding]; other site 323850001855 motif III; other site 323850001856 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 323850001857 nucleotide binding region [chemical binding]; other site 323850001858 ATP-binding site [chemical binding]; other site 323850001859 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 323850001860 putative RNA binding site [nucleotide binding]; other site 323850001861 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 323850001862 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 323850001863 S-adenosylmethionine binding site [chemical binding]; other site 323850001864 Uncharacterized conserved protein [Function unknown]; Region: COG3791 323850001865 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 323850001866 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 323850001867 ATP binding site [chemical binding]; other site 323850001868 Mg++ binding site [ion binding]; other site 323850001869 motif III; other site 323850001870 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 323850001871 nucleotide binding region [chemical binding]; other site 323850001872 ATP-binding site [chemical binding]; other site 323850001873 Protein of unknown function (DUF3622); Region: DUF3622; pfam12286 323850001874 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 323850001875 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 323850001876 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 323850001877 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 323850001878 thiosulfate reductase PhsA; Provisional; Region: PRK15488 323850001879 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 323850001880 putative [Fe4-S4] binding site [ion binding]; other site 323850001881 putative molybdopterin cofactor binding site [chemical binding]; other site 323850001882 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 323850001883 putative molybdopterin cofactor binding site; other site 323850001884 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 323850001885 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 323850001886 active site 323850001887 phosphorylation site [posttranslational modification] 323850001888 intermolecular recognition site; other site 323850001889 dimerization interface [polypeptide binding]; other site 323850001890 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 323850001891 DNA binding residues [nucleotide binding] 323850001892 dimerization interface [polypeptide binding]; other site 323850001893 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 323850001894 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 323850001895 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 323850001896 dimer interface [polypeptide binding]; other site 323850001897 phosphorylation site [posttranslational modification] 323850001898 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 323850001899 ATP binding site [chemical binding]; other site 323850001900 Mg2+ binding site [ion binding]; other site 323850001901 G-X-G motif; other site 323850001902 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 323850001903 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323850001904 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 323850001905 Walker A/P-loop; other site 323850001906 ATP binding site [chemical binding]; other site 323850001907 Q-loop/lid; other site 323850001908 ABC transporter signature motif; other site 323850001909 Walker B; other site 323850001910 D-loop; other site 323850001911 H-loop/switch region; other site 323850001912 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 323850001913 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323850001914 Walker A/P-loop; other site 323850001915 ATP binding site [chemical binding]; other site 323850001916 Q-loop/lid; other site 323850001917 ABC transporter signature motif; other site 323850001918 Walker B; other site 323850001919 D-loop; other site 323850001920 H-loop/switch region; other site 323850001921 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 323850001922 Proline dehydrogenase; Region: Pro_dh; pfam01619 323850001923 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 323850001924 Glutamate binding site [chemical binding]; other site 323850001925 NAD binding site [chemical binding]; other site 323850001926 catalytic residues [active] 323850001927 Bacterial SH3 domain homologues; Region: SH3b; smart00287 323850001928 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 323850001929 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 323850001930 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 323850001931 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 323850001932 Uncharacterized conserved protein [Function unknown]; Region: COG3025 323850001933 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 323850001934 putative active site [active] 323850001935 putative metal binding residues [ion binding]; other site 323850001936 signature motif; other site 323850001937 putative triphosphate binding site [ion binding]; other site 323850001938 Ion transport protein; Region: Ion_trans; pfam00520 323850001939 Ion channel; Region: Ion_trans_2; pfam07885 323850001940 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 323850001941 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 323850001942 spermidine synthase; Provisional; Region: PRK03612 323850001943 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 323850001944 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 323850001945 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 323850001946 metal binding triad; other site 323850001947 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 323850001948 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 323850001949 metal binding triad; other site 323850001950 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 323850001951 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323850001952 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 323850001953 substrate binding pocket [chemical binding]; other site 323850001954 membrane-bound complex binding site; other site 323850001955 hinge residues; other site 323850001956 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 323850001957 Predicted ATPase [General function prediction only]; Region: COG1485 323850001958 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323850001959 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 323850001960 ligand binding site [chemical binding]; other site 323850001961 IPT/TIG domain; Region: TIG; pfam01833 323850001962 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 323850001963 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 323850001964 binding surface 323850001965 Tetratricopeptide repeat; Region: TPR_16; pfam13432 323850001966 TPR motif; other site 323850001967 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 323850001968 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 323850001969 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323850001970 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 323850001971 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323850001972 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 323850001973 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 323850001974 phosphopeptide binding site; other site 323850001975 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 323850001976 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 323850001977 ATP binding site [chemical binding]; other site 323850001978 Walker A motif; other site 323850001979 hexamer interface [polypeptide binding]; other site 323850001980 Walker B motif; other site 323850001981 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 323850001982 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 323850001983 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 323850001984 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 323850001985 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 323850001986 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 323850001987 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 323850001988 DNA binding residues [nucleotide binding] 323850001989 dimerization interface [polypeptide binding]; other site 323850001990 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 323850001991 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 323850001992 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 323850001993 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 323850001994 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 323850001995 GAF domain; Region: GAF; pfam01590 323850001996 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 323850001997 Walker A motif; other site 323850001998 ATP binding site [chemical binding]; other site 323850001999 Walker B motif; other site 323850002000 arginine finger; other site 323850002001 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 323850002002 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 323850002003 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 323850002004 putative acyl-acceptor binding pocket; other site 323850002005 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 323850002006 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 323850002007 putative ribose interaction site [chemical binding]; other site 323850002008 putative ADP binding site [chemical binding]; other site 323850002009 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 323850002010 active site 323850002011 nucleotide binding site [chemical binding]; other site 323850002012 HIGH motif; other site 323850002013 KMSKS motif; other site 323850002014 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 323850002015 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 323850002016 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 323850002017 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 323850002018 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 323850002019 ligand binding site [chemical binding]; other site 323850002020 homodimer interface [polypeptide binding]; other site 323850002021 NAD(P) binding site [chemical binding]; other site 323850002022 trimer interface B [polypeptide binding]; other site 323850002023 trimer interface A [polypeptide binding]; other site 323850002024 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 323850002025 Flavodoxin; Region: Flavodoxin_1; pfam00258 323850002026 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; cd06199 323850002027 FAD binding pocket [chemical binding]; other site 323850002028 FAD binding motif [chemical binding]; other site 323850002029 catalytic residues [active] 323850002030 NAD binding pocket [chemical binding]; other site 323850002031 phosphate binding motif [ion binding]; other site 323850002032 beta-alpha-beta structure motif; other site 323850002033 sulfite reductase subunit beta; Provisional; Region: PRK13504 323850002034 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 323850002035 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 323850002036 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 323850002037 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 323850002038 Active Sites [active] 323850002039 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 323850002040 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 323850002041 catalytic triad [active] 323850002042 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 323850002043 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 323850002044 dimerization interface [polypeptide binding]; other site 323850002045 substrate binding site [chemical binding]; other site 323850002046 active site 323850002047 calcium binding site [ion binding]; other site 323850002048 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 323850002049 active site 323850002050 SAM binding site [chemical binding]; other site 323850002051 homodimer interface [polypeptide binding]; other site 323850002052 TIGR03899 family protein; Region: TIGR03899 323850002053 Major Facilitator Superfamily; Region: MFS_1; pfam07690 323850002054 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 323850002055 putative substrate translocation pore; other site 323850002056 Imelysin; Region: Peptidase_M75; pfam09375 323850002057 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 323850002058 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 323850002059 Flavodoxin domain; Region: Flavodoxin_5; cl17428 323850002060 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 323850002061 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850002062 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850002063 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 323850002064 dimerization interface [polypeptide binding]; other site 323850002065 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 323850002066 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 323850002067 active site 323850002068 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 323850002069 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323850002070 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850002071 Domain of unknown function (DUF4328); Region: DUF4328; pfam14219 323850002072 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 323850002073 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 323850002074 catalytic residues [active] 323850002075 hinge region; other site 323850002076 alpha helical domain; other site 323850002077 DNA-J related protein; Region: DNAJ_related; pfam12339 323850002078 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 323850002079 HSP70 interaction site [polypeptide binding]; other site 323850002080 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 323850002081 FMN binding site [chemical binding]; other site 323850002082 dimer interface [polypeptide binding]; other site 323850002083 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 323850002084 putative catalytic site [active] 323850002085 putative metal binding site [ion binding]; other site 323850002086 putative phosphate binding site [ion binding]; other site 323850002087 Domain of unknown function DUF20; Region: UPF0118; pfam01594 323850002088 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 323850002089 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 323850002090 Domain of unknown function; Region: DUF331; pfam03889 323850002091 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 323850002092 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 323850002093 substrate binding site [chemical binding]; other site 323850002094 dimer interface [polypeptide binding]; other site 323850002095 ATP binding site [chemical binding]; other site 323850002096 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 323850002097 active site 323850002098 tetramer interface [polypeptide binding]; other site 323850002099 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 323850002100 Protein of unknown function (DUF401); Region: DUF401; cl00830 323850002101 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 323850002102 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 323850002103 Pirin-related protein [General function prediction only]; Region: COG1741 323850002104 Pirin; Region: Pirin; pfam02678 323850002105 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 323850002106 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 323850002107 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 323850002108 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 323850002109 Response regulator receiver domain; Region: Response_reg; pfam00072 323850002110 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 323850002111 active site 323850002112 phosphorylation site [posttranslational modification] 323850002113 intermolecular recognition site; other site 323850002114 dimerization interface [polypeptide binding]; other site 323850002115 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 323850002116 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323850002117 NAD(P) binding site [chemical binding]; other site 323850002118 active site 323850002119 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 323850002120 putative deacylase active site [active] 323850002121 SseB protein; Region: SseB; cl06279 323850002122 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 323850002123 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 323850002124 heme binding site [chemical binding]; other site 323850002125 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 323850002126 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 323850002127 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 323850002128 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 323850002129 substrate binding pocket [chemical binding]; other site 323850002130 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 323850002131 B12 binding site [chemical binding]; other site 323850002132 cobalt ligand [ion binding]; other site 323850002133 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 323850002134 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 323850002135 catalytic core [active] 323850002136 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 323850002137 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 323850002138 Walker A/P-loop; other site 323850002139 ATP binding site [chemical binding]; other site 323850002140 Q-loop/lid; other site 323850002141 ABC transporter signature motif; other site 323850002142 Walker B; other site 323850002143 D-loop; other site 323850002144 H-loop/switch region; other site 323850002145 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 323850002146 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 323850002147 ABC-ATPase subunit interface; other site 323850002148 dimer interface [polypeptide binding]; other site 323850002149 putative PBP binding regions; other site 323850002150 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 323850002151 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 323850002152 active site pocket [active] 323850002153 putative dimer interface [polypeptide binding]; other site 323850002154 putative cataytic base [active] 323850002155 cobalamin synthase; Reviewed; Region: cobS; PRK00235 323850002156 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 323850002157 homotrimer interface [polypeptide binding]; other site 323850002158 Walker A motif; other site 323850002159 GTP binding site [chemical binding]; other site 323850002160 Walker B motif; other site 323850002161 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 323850002162 cobyric acid synthase; Provisional; Region: PRK00784 323850002163 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 323850002164 catalytic triad [active] 323850002165 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 323850002166 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 323850002167 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 323850002168 homodimer interface [polypeptide binding]; other site 323850002169 Walker A motif; other site 323850002170 ATP binding site [chemical binding]; other site 323850002171 hydroxycobalamin binding site [chemical binding]; other site 323850002172 Walker B motif; other site 323850002173 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 323850002174 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 323850002175 cobalamin binding residues [chemical binding]; other site 323850002176 putative BtuC binding residues; other site 323850002177 dimer interface [polypeptide binding]; other site 323850002178 MAPEG family; Region: MAPEG; cl09190 323850002179 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323850002180 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 323850002181 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850002182 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323850002183 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 323850002184 Walker A/P-loop; other site 323850002185 ATP binding site [chemical binding]; other site 323850002186 Q-loop/lid; other site 323850002187 ABC transporter signature motif; other site 323850002188 Walker B; other site 323850002189 D-loop; other site 323850002190 H-loop/switch region; other site 323850002191 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323850002192 FtsX-like permease family; Region: FtsX; pfam02687 323850002193 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323850002194 FtsX-like permease family; Region: FtsX; pfam02687 323850002195 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 323850002196 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 323850002197 active site 323850002198 phosphorylation site [posttranslational modification] 323850002199 intermolecular recognition site; other site 323850002200 dimerization interface [polypeptide binding]; other site 323850002201 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 323850002202 Walker A motif; other site 323850002203 ATP binding site [chemical binding]; other site 323850002204 Walker B motif; other site 323850002205 arginine finger; other site 323850002206 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323850002207 HAMP domain; Region: HAMP; pfam00672 323850002208 PAS domain; Region: PAS_8; pfam13188 323850002209 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 323850002210 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 323850002211 ATP binding site [chemical binding]; other site 323850002212 Mg2+ binding site [ion binding]; other site 323850002213 G-X-G motif; other site 323850002214 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 323850002215 active site 323850002216 substrate binding pocket [chemical binding]; other site 323850002217 dimer interface [polypeptide binding]; other site 323850002218 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 323850002219 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323850002220 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 323850002221 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 323850002222 active site residue [active] 323850002223 Predicted transporter component [General function prediction only]; Region: COG2391 323850002224 Sulphur transport; Region: Sulf_transp; pfam04143 323850002225 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 323850002226 PAS fold; Region: PAS_3; pfam08447 323850002227 putative active site [active] 323850002228 heme pocket [chemical binding]; other site 323850002229 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850002230 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850002231 metal binding site [ion binding]; metal-binding site 323850002232 active site 323850002233 I-site; other site 323850002234 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 323850002235 active site 323850002236 Fe-S metabolism associated domain; Region: SufE; cl00951 323850002237 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 323850002238 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 323850002239 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323850002240 catalytic residue [active] 323850002241 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 323850002242 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 323850002243 active site 323850002244 catalytic tetrad [active] 323850002245 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 323850002246 MarR family; Region: MarR_2; pfam12802 323850002247 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 323850002248 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850002249 Coenzyme A binding pocket [chemical binding]; other site 323850002250 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 323850002251 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 323850002252 serine transporter; Region: stp; TIGR00814 323850002253 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 323850002254 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 323850002255 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 323850002256 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 323850002257 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850002258 Coenzyme A binding pocket [chemical binding]; other site 323850002259 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 323850002260 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 323850002261 META domain; Region: META; pfam03724 323850002262 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850002263 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 323850002264 metal binding site [ion binding]; metal-binding site 323850002265 nucleotidyl binding site; other site 323850002266 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850002267 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850002268 metal binding site [ion binding]; metal-binding site 323850002269 active site 323850002270 I-site; other site 323850002271 S-adenosylmethionine synthetase; Validated; Region: PRK05250 323850002272 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 323850002273 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 323850002274 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 323850002275 transketolase; Reviewed; Region: PRK12753 323850002276 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 323850002277 TPP-binding site [chemical binding]; other site 323850002278 dimer interface [polypeptide binding]; other site 323850002279 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 323850002280 PYR/PP interface [polypeptide binding]; other site 323850002281 dimer interface [polypeptide binding]; other site 323850002282 TPP binding site [chemical binding]; other site 323850002283 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 323850002284 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 323850002285 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 323850002286 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 323850002287 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 323850002288 Phosphoglycerate kinase; Region: PGK; pfam00162 323850002289 substrate binding site [chemical binding]; other site 323850002290 hinge regions; other site 323850002291 ADP binding site [chemical binding]; other site 323850002292 catalytic site [active] 323850002293 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 323850002294 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 323850002295 intersubunit interface [polypeptide binding]; other site 323850002296 active site 323850002297 zinc binding site [ion binding]; other site 323850002298 Na+ binding site [ion binding]; other site 323850002299 Protein of unknown function, DUF481; Region: DUF481; pfam04338 323850002300 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 323850002301 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 323850002302 DNA binding site [nucleotide binding] 323850002303 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 323850002304 PAS domain; Region: PAS_9; pfam13426 323850002305 putative active site [active] 323850002306 heme pocket [chemical binding]; other site 323850002307 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850002308 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 323850002309 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 323850002310 FeS/SAM binding site; other site 323850002311 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323850002312 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323850002313 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850002314 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 323850002315 DEAD-like helicases superfamily; Region: DEXDc; smart00487 323850002316 ATP binding site [chemical binding]; other site 323850002317 Mg++ binding site [ion binding]; other site 323850002318 motif III; other site 323850002319 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 323850002320 nucleotide binding region [chemical binding]; other site 323850002321 ATP-binding site [chemical binding]; other site 323850002322 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 323850002323 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 323850002324 S-adenosylmethionine binding site [chemical binding]; other site 323850002325 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 323850002326 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 323850002327 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 323850002328 active site 323850002329 Int/Topo IB signature motif; other site 323850002330 Ribosome anti-association factor IF6 binds the large ribosomal subunit and prevents the two subunits from associating during translation initiation. IF6 comprises a family of translation factors that includes both eukaryotic (eIF6) and archeal (aIF6)...; Region: IF6; cl00241 323850002331 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 323850002332 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 323850002333 dimerization domain [polypeptide binding]; other site 323850002334 dimer interface [polypeptide binding]; other site 323850002335 catalytic residues [active] 323850002336 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 323850002337 DHH family; Region: DHH; pfam01368 323850002338 DHHA1 domain; Region: DHHA1; pfam02272 323850002339 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 323850002340 metal binding site [ion binding]; metal-binding site 323850002341 active site 323850002342 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 323850002343 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 323850002344 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323850002345 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323850002346 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323850002347 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 323850002348 RibD C-terminal domain; Region: RibD_C; cl17279 323850002349 two-component response regulator; Provisional; Region: PRK11173 323850002350 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 323850002351 active site 323850002352 phosphorylation site [posttranslational modification] 323850002353 intermolecular recognition site; other site 323850002354 dimerization interface [polypeptide binding]; other site 323850002355 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 323850002356 DNA binding site [nucleotide binding] 323850002357 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 323850002358 aspartate kinase III; Validated; Region: PRK09084 323850002359 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 323850002360 nucleotide binding site [chemical binding]; other site 323850002361 substrate binding site [chemical binding]; other site 323850002362 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 323850002363 dimer interface [polypeptide binding]; other site 323850002364 allosteric regulatory binding pocket; other site 323850002365 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 323850002366 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 323850002367 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 323850002368 active site 323850002369 Zn binding site [ion binding]; other site 323850002370 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 323850002371 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 323850002372 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 323850002373 active site 323850002374 catalytic residues [active] 323850002375 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined; Region: PA_subtilisin_1; cd04818 323850002376 PA/protease or protease-like domain interface [polypeptide binding]; other site 323850002377 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 323850002378 GlyGly-CTERM domain; Region: GlyGly_CTERM; TIGR03501 323850002379 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 323850002380 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 323850002381 putative DNA binding site [nucleotide binding]; other site 323850002382 putative Zn2+ binding site [ion binding]; other site 323850002383 AsnC family; Region: AsnC_trans_reg; pfam01037 323850002384 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 323850002385 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 323850002386 active site 323850002387 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 323850002388 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323850002389 S-adenosylmethionine binding site [chemical binding]; other site 323850002390 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 323850002391 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 323850002392 putative ligand binding site [chemical binding]; other site 323850002393 putative NAD binding site [chemical binding]; other site 323850002394 catalytic site [active] 323850002395 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 323850002396 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 323850002397 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 323850002398 oligomer interface [polypeptide binding]; other site 323850002399 metal binding site [ion binding]; metal-binding site 323850002400 metal binding site [ion binding]; metal-binding site 323850002401 putative Cl binding site [ion binding]; other site 323850002402 aspartate ring; other site 323850002403 basic sphincter; other site 323850002404 hydrophobic gate; other site 323850002405 periplasmic entrance; other site 323850002406 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 323850002407 Mechanosensitive ion channel; Region: MS_channel; pfam00924 323850002408 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 323850002409 peroxiredoxin; Region: AhpC; TIGR03137 323850002410 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 323850002411 dimer interface [polypeptide binding]; other site 323850002412 decamer (pentamer of dimers) interface [polypeptide binding]; other site 323850002413 catalytic triad [active] 323850002414 peroxidatic and resolving cysteines [active] 323850002415 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 323850002416 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 323850002417 catalytic residue [active] 323850002418 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 323850002419 catalytic residues [active] 323850002420 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 323850002421 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323850002422 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850002423 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850002424 metal binding site [ion binding]; metal-binding site 323850002425 active site 323850002426 I-site; other site 323850002427 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 323850002428 catalytic residues [active] 323850002429 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 323850002430 ligand binding site [chemical binding]; other site 323850002431 Transcriptional regulators [Transcription]; Region: MarR; COG1846 323850002432 MarR family; Region: MarR; pfam01047 323850002433 FAD dependent oxidoreductase; Region: DAO; pfam01266 323850002434 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 323850002435 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 323850002436 Chromate transporter; Region: Chromate_transp; pfam02417 323850002437 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 323850002438 dimer interface [polypeptide binding]; other site 323850002439 phosphorylation site [posttranslational modification] 323850002440 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 323850002441 ATP binding site [chemical binding]; other site 323850002442 Mg2+ binding site [ion binding]; other site 323850002443 G-X-G motif; other site 323850002444 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323850002445 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 323850002446 active site 323850002447 phosphorylation site [posttranslational modification] 323850002448 intermolecular recognition site; other site 323850002449 dimerization interface [polypeptide binding]; other site 323850002450 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 323850002451 DNA binding site [nucleotide binding] 323850002452 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 323850002453 MltA-interacting protein MipA; Region: MipA; cl01504 323850002454 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 323850002455 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 323850002456 active site 323850002457 catalytic triad [active] 323850002458 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 323850002459 PA/protease or protease-like domain interface [polypeptide binding]; other site 323850002460 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 323850002461 catalytic residues [active] 323850002462 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 323850002463 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 323850002464 dimerization interface [polypeptide binding]; other site 323850002465 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323850002466 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850002467 dimer interface [polypeptide binding]; other site 323850002468 putative CheW interface [polypeptide binding]; other site 323850002469 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 323850002470 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 323850002471 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 323850002472 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 323850002473 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 323850002474 [4Fe-4S] binding site [ion binding]; other site 323850002475 molybdopterin cofactor binding site; other site 323850002476 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 323850002477 molybdopterin cofactor binding site; other site 323850002478 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 323850002479 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 323850002480 Ion transport protein; Region: Ion_trans; pfam00520 323850002481 Ion channel; Region: Ion_trans_2; pfam07885 323850002482 This domain is found in peptide chain release factors; Region: PCRF; smart00937 323850002483 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 323850002484 RF-1 domain; Region: RF-1; pfam00472 323850002485 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 323850002486 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 323850002487 dimer interface [polypeptide binding]; other site 323850002488 putative anticodon binding site; other site 323850002489 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 323850002490 motif 1; other site 323850002491 active site 323850002492 motif 2; other site 323850002493 motif 3; other site 323850002494 PAS domain S-box; Region: sensory_box; TIGR00229 323850002495 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 323850002496 putative active site [active] 323850002497 heme pocket [chemical binding]; other site 323850002498 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 323850002499 PAS domain; Region: PAS_9; pfam13426 323850002500 putative active site [active] 323850002501 heme pocket [chemical binding]; other site 323850002502 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850002503 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850002504 metal binding site [ion binding]; metal-binding site 323850002505 active site 323850002506 I-site; other site 323850002507 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 323850002508 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 323850002509 pseudouridine synthase; Region: TIGR00093 323850002510 active site 323850002511 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 323850002512 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 323850002513 active site 323850002514 trimer interface [polypeptide binding]; other site 323850002515 allosteric site; other site 323850002516 active site lid [active] 323850002517 hexamer (dimer of trimers) interface [polypeptide binding]; other site 323850002518 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 323850002519 putative hydrophobic ligand binding site [chemical binding]; other site 323850002520 Cupin domain; Region: Cupin_2; cl17218 323850002521 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 323850002522 Peptidase family U32; Region: Peptidase_U32; pfam01136 323850002523 Collagenase; Region: DUF3656; pfam12392 323850002524 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 323850002525 pentamer interface [polypeptide binding]; other site 323850002526 dodecaamer interface [polypeptide binding]; other site 323850002527 Predicted ATPase [General function prediction only]; Region: COG4637 323850002528 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323850002529 Walker A/P-loop; other site 323850002530 ATP binding site [chemical binding]; other site 323850002531 Pathogenicity locus; Region: Cdd1; pfam11731 323850002532 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 323850002533 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850002534 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850002535 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 323850002536 putative effector binding pocket; other site 323850002537 dimerization interface [polypeptide binding]; other site 323850002538 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 323850002539 NADH(P)-binding; Region: NAD_binding_10; pfam13460 323850002540 NAD binding site [chemical binding]; other site 323850002541 substrate binding site [chemical binding]; other site 323850002542 putative active site [active] 323850002543 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 323850002544 tetramer (dimer of dimers) interface [polypeptide binding]; other site 323850002545 active site 323850002546 dimer interface [polypeptide binding]; other site 323850002547 Protein of unknown function (DUF808); Region: DUF808; pfam05661 323850002548 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 323850002549 active site 323850002550 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850002551 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850002552 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 323850002553 dimerization interface [polypeptide binding]; other site 323850002554 LrgA family; Region: LrgA; pfam03788 323850002555 LrgB-like family; Region: LrgB; pfam04172 323850002556 FOG: CBS domain [General function prediction only]; Region: COG0517 323850002557 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 323850002558 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 323850002559 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 323850002560 putative active site [active] 323850002561 putative metal binding site [ion binding]; other site 323850002562 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 323850002563 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323850002564 active site 323850002565 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 323850002566 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 323850002567 Zn binding site [ion binding]; other site 323850002568 uncharacterized proteobacterial lipoprotein; Region: lp_; TIGR02722 323850002569 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 323850002570 SlyX; Region: SlyX; pfam04102 323850002571 FOG: WD40 repeat [General function prediction only]; Region: COG2319 323850002572 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 323850002573 structural tetrad; other site 323850002574 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 323850002575 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 323850002576 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 323850002577 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 323850002578 transcriptional regulator NarL; Provisional; Region: PRK10651 323850002579 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 323850002580 active site 323850002581 phosphorylation site [posttranslational modification] 323850002582 intermolecular recognition site; other site 323850002583 dimerization interface [polypeptide binding]; other site 323850002584 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 323850002585 DNA binding residues [nucleotide binding] 323850002586 dimerization interface [polypeptide binding]; other site 323850002587 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 323850002588 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 323850002589 HAMP domain; Region: HAMP; pfam00672 323850002590 Histidine kinase; Region: HisKA_3; pfam07730 323850002591 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 323850002592 ATP binding site [chemical binding]; other site 323850002593 Mg2+ binding site [ion binding]; other site 323850002594 G-X-G motif; other site 323850002595 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 323850002596 Isochorismatase family; Region: Isochorismatase; pfam00857 323850002597 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 323850002598 catalytic triad [active] 323850002599 dimer interface [polypeptide binding]; other site 323850002600 conserved cis-peptide bond; other site 323850002601 Nitrogen regulatory protein P-II; Region: P-II; cl00412 323850002602 Nitrogen regulatory protein P-II; Region: P-II; smart00938 323850002603 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 323850002604 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323850002605 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 323850002606 binding surface 323850002607 TPR motif; other site 323850002608 TPR repeat; Region: TPR_11; pfam13414 323850002609 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 323850002610 binding surface 323850002611 TPR motif; other site 323850002612 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323850002613 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 323850002614 substrate binding pocket [chemical binding]; other site 323850002615 membrane-bound complex binding site; other site 323850002616 hinge residues; other site 323850002617 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 323850002618 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 323850002619 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323850002620 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 323850002621 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323850002622 Walker A/P-loop; other site 323850002623 ATP binding site [chemical binding]; other site 323850002624 Q-loop/lid; other site 323850002625 ABC transporter signature motif; other site 323850002626 Walker B; other site 323850002627 D-loop; other site 323850002628 H-loop/switch region; other site 323850002629 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 323850002630 catalytic core [active] 323850002631 ferredoxin-NADP reductase; Provisional; Region: PRK10926 323850002632 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 323850002633 FAD binding pocket [chemical binding]; other site 323850002634 FAD binding motif [chemical binding]; other site 323850002635 phosphate binding motif [ion binding]; other site 323850002636 beta-alpha-beta structure motif; other site 323850002637 NAD binding pocket [chemical binding]; other site 323850002638 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 323850002639 putative C-terminal domain interface [polypeptide binding]; other site 323850002640 putative GSH binding site (G-site) [chemical binding]; other site 323850002641 putative dimer interface [polypeptide binding]; other site 323850002642 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 323850002643 N-terminal domain interface [polypeptide binding]; other site 323850002644 dimer interface [polypeptide binding]; other site 323850002645 substrate binding pocket (H-site) [chemical binding]; other site 323850002646 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 323850002647 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 323850002648 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 323850002649 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323850002650 dimer interface [polypeptide binding]; other site 323850002651 conserved gate region; other site 323850002652 putative PBP binding loops; other site 323850002653 ABC-ATPase subunit interface; other site 323850002654 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323850002655 dimer interface [polypeptide binding]; other site 323850002656 conserved gate region; other site 323850002657 putative PBP binding loops; other site 323850002658 ABC-ATPase subunit interface; other site 323850002659 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 323850002660 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 323850002661 Walker A/P-loop; other site 323850002662 ATP binding site [chemical binding]; other site 323850002663 Q-loop/lid; other site 323850002664 ABC transporter signature motif; other site 323850002665 Walker B; other site 323850002666 D-loop; other site 323850002667 H-loop/switch region; other site 323850002668 TOBE domain; Region: TOBE_2; pfam08402 323850002669 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 323850002670 Cupin domain; Region: Cupin_2; cl17218 323850002671 arginine repressor; Provisional; Region: PRK05066 323850002672 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 323850002673 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 323850002674 malate dehydrogenase; Provisional; Region: PRK05086 323850002675 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 323850002676 NAD binding site [chemical binding]; other site 323850002677 dimerization interface [polypeptide binding]; other site 323850002678 Substrate binding site [chemical binding]; other site 323850002679 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 323850002680 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 323850002681 substrate binding pocket [chemical binding]; other site 323850002682 chain length determination region; other site 323850002683 substrate-Mg2+ binding site; other site 323850002684 catalytic residues [active] 323850002685 aspartate-rich region 1; other site 323850002686 active site lid residues [active] 323850002687 aspartate-rich region 2; other site 323850002688 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 323850002689 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 323850002690 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 323850002691 GTPase CgtA; Reviewed; Region: obgE; PRK12298 323850002692 GTP1/OBG; Region: GTP1_OBG; pfam01018 323850002693 Obg GTPase; Region: Obg; cd01898 323850002694 G1 box; other site 323850002695 GTP/Mg2+ binding site [chemical binding]; other site 323850002696 Switch I region; other site 323850002697 G2 box; other site 323850002698 G3 box; other site 323850002699 Switch II region; other site 323850002700 G4 box; other site 323850002701 G5 box; other site 323850002702 Uncharacterized conserved protein [Function unknown]; Region: COG2966 323850002703 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 323850002704 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 323850002705 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 323850002706 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 323850002707 NADP+ binding site [chemical binding]; other site 323850002708 folate binding site [chemical binding]; other site 323850002709 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 323850002710 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 323850002711 dimerization interface [polypeptide binding]; other site 323850002712 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323850002713 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850002714 dimer interface [polypeptide binding]; other site 323850002715 putative CheW interface [polypeptide binding]; other site 323850002716 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 323850002717 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 323850002718 active site 323850002719 metal binding site [ion binding]; metal-binding site 323850002720 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 323850002721 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 323850002722 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 323850002723 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 323850002724 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 323850002725 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 323850002726 SurA N-terminal domain; Region: SurA_N; pfam09312 323850002727 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 323850002728 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 323850002729 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 323850002730 OstA-like protein; Region: OstA; cl00844 323850002731 Organic solvent tolerance protein; Region: OstA_C; pfam04453 323850002732 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 323850002733 Phosphotransferase enzyme family; Region: APH; pfam01636 323850002734 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 323850002735 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 323850002736 Substrate binding site; other site 323850002737 metal-binding site 323850002738 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 323850002739 putative metal binding site [ion binding]; other site 323850002740 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 323850002741 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 323850002742 HSP70 interaction site [polypeptide binding]; other site 323850002743 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 323850002744 glycerate dehydrogenase; Provisional; Region: PRK06487 323850002745 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 323850002746 putative ligand binding site [chemical binding]; other site 323850002747 putative NAD binding site [chemical binding]; other site 323850002748 catalytic site [active] 323850002749 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 323850002750 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 323850002751 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323850002752 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850002753 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 323850002754 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 323850002755 putative active site [active] 323850002756 heme pocket [chemical binding]; other site 323850002757 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 323850002758 putative active site [active] 323850002759 heme pocket [chemical binding]; other site 323850002760 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850002761 dimer interface [polypeptide binding]; other site 323850002762 putative CheW interface [polypeptide binding]; other site 323850002763 Ycf46; Provisional; Region: ycf46; CHL00195 323850002764 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 323850002765 Walker A motif; other site 323850002766 ATP binding site [chemical binding]; other site 323850002767 Walker B motif; other site 323850002768 arginine finger; other site 323850002769 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 323850002770 Predicted Fe-S protein [General function prediction only]; Region: COG3313 323850002771 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323850002772 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; cl01054 323850002773 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 323850002774 dimer interface [polypeptide binding]; other site 323850002775 phosphorylation site [posttranslational modification] 323850002776 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 323850002777 ATP binding site [chemical binding]; other site 323850002778 Mg2+ binding site [ion binding]; other site 323850002779 G-X-G motif; other site 323850002780 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 323850002781 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 323850002782 active site 323850002783 phosphorylation site [posttranslational modification] 323850002784 intermolecular recognition site; other site 323850002785 dimerization interface [polypeptide binding]; other site 323850002786 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 323850002787 DNA binding site [nucleotide binding] 323850002788 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 323850002789 MltA-interacting protein MipA; Region: MipA; cl01504 323850002790 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850002791 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850002792 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 323850002793 dimerization interface [polypeptide binding]; other site 323850002794 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 323850002795 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 323850002796 FAD binding site [chemical binding]; other site 323850002797 substrate binding pocket [chemical binding]; other site 323850002798 catalytic base [active] 323850002799 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 323850002800 tetramer interface [polypeptide binding]; other site 323850002801 TPP-binding site [chemical binding]; other site 323850002802 heterodimer interface [polypeptide binding]; other site 323850002803 phosphorylation loop region [posttranslational modification] 323850002804 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 323850002805 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 323850002806 alpha subunit interface [polypeptide binding]; other site 323850002807 TPP binding site [chemical binding]; other site 323850002808 heterodimer interface [polypeptide binding]; other site 323850002809 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 323850002810 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 323850002811 putative acetyltransferase YhhY; Provisional; Region: PRK10140 323850002812 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850002813 Coenzyme A binding pocket [chemical binding]; other site 323850002814 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 323850002815 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 323850002816 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 323850002817 Response regulator receiver domain; Region: Response_reg; pfam00072 323850002818 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 323850002819 active site 323850002820 phosphorylation site [posttranslational modification] 323850002821 intermolecular recognition site; other site 323850002822 dimerization interface [polypeptide binding]; other site 323850002823 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 323850002824 PAS domain; Region: PAS_9; pfam13426 323850002825 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 323850002826 PAS fold; Region: PAS_3; pfam08447 323850002827 putative active site [active] 323850002828 heme pocket [chemical binding]; other site 323850002829 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 323850002830 dimer interface [polypeptide binding]; other site 323850002831 phosphorylation site [posttranslational modification] 323850002832 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 323850002833 ATP binding site [chemical binding]; other site 323850002834 Mg2+ binding site [ion binding]; other site 323850002835 G-X-G motif; other site 323850002836 Response regulator receiver domain; Region: Response_reg; pfam00072 323850002837 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 323850002838 active site 323850002839 phosphorylation site [posttranslational modification] 323850002840 intermolecular recognition site; other site 323850002841 dimerization interface [polypeptide binding]; other site 323850002842 putative outer membrane lipoprotein; Provisional; Region: PRK10510 323850002843 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323850002844 ligand binding site [chemical binding]; other site 323850002845 YcxB-like protein; Region: YcxB; pfam14317 323850002846 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 323850002847 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323850002848 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 323850002849 active site 323850002850 metal binding site [ion binding]; metal-binding site 323850002851 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 323850002852 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 323850002853 Predicted transcriptional regulator [Transcription]; Region: COG2345 323850002854 Helix-turn-helix domain; Region: HTH_20; pfam12840 323850002855 putative DNA binding site [nucleotide binding]; other site 323850002856 putative Zn2+ binding site [ion binding]; other site 323850002857 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 323850002858 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; cl09940 323850002859 RNA binding surface [nucleotide binding]; other site 323850002860 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 323850002861 active site 323850002862 uracil binding [chemical binding]; other site 323850002863 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850002864 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850002865 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 323850002866 dimerization interface [polypeptide binding]; other site 323850002867 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 323850002868 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 323850002869 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 323850002870 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 323850002871 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 323850002872 Major Facilitator Superfamily; Region: MFS_1; pfam07690 323850002873 putative substrate translocation pore; other site 323850002874 Peptidase M60-like family; Region: M60-like; pfam13402 323850002875 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; cl01054 323850002876 dimerization interface [polypeptide binding]; other site 323850002877 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323850002878 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850002879 dimer interface [polypeptide binding]; other site 323850002880 putative CheW interface [polypeptide binding]; other site 323850002881 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 323850002882 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 323850002883 HIGH motif; other site 323850002884 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 323850002885 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 323850002886 active site 323850002887 KMSKS motif; other site 323850002888 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 323850002889 tRNA binding surface [nucleotide binding]; other site 323850002890 anticodon binding site; other site 323850002891 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 323850002892 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 323850002893 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 323850002894 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 323850002895 active site 323850002896 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323850002897 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323850002898 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323850002899 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 323850002900 AMMECR1; Region: AMMECR1; pfam01871 323850002901 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 323850002902 putative ligand binding pocket/active site [active] 323850002903 putative metal binding site [ion binding]; other site 323850002904 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 323850002905 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 323850002906 FeS/SAM binding site; other site 323850002907 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 323850002908 S-adenosylmethionine binding site [chemical binding]; other site 323850002909 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 323850002910 TPR motif; other site 323850002911 TPR repeat; Region: TPR_11; pfam13414 323850002912 binding surface 323850002913 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 323850002914 active site 323850002915 catalytic triad [active] 323850002916 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 323850002917 PA/protease or protease-like domain interface [polypeptide binding]; other site 323850002918 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 323850002919 catalytic residues [active] 323850002920 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 323850002921 catalytic triad [active] 323850002922 putative active site [active] 323850002923 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 323850002924 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 323850002925 Ca2+ binding site [ion binding]; other site 323850002926 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; cl17355 323850002927 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323850002928 DNA binding site [nucleotide binding] 323850002929 multifunctional aminopeptidase A; Provisional; Region: PRK00913 323850002930 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 323850002931 interface (dimer of trimers) [polypeptide binding]; other site 323850002932 Substrate-binding/catalytic site; other site 323850002933 Zn-binding sites [ion binding]; other site 323850002934 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 323850002935 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 323850002936 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 323850002937 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 323850002938 RDD family; Region: RDD; pfam06271 323850002939 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 323850002940 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 323850002941 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850002942 Coenzyme A binding pocket [chemical binding]; other site 323850002943 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 323850002944 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 323850002945 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 323850002946 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 323850002947 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 323850002948 active site 323850002949 Zn binding site [ion binding]; other site 323850002950 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 323850002951 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 323850002952 putative catalytic residues [active] 323850002953 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 323850002954 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 323850002955 ATP binding site [chemical binding]; other site 323850002956 Mg++ binding site [ion binding]; other site 323850002957 motif III; other site 323850002958 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 323850002959 nucleotide binding region [chemical binding]; other site 323850002960 ATP-binding site [chemical binding]; other site 323850002961 Response regulator receiver domain; Region: Response_reg; pfam00072 323850002962 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 323850002963 active site 323850002964 phosphorylation site [posttranslational modification] 323850002965 intermolecular recognition site; other site 323850002966 dimerization interface [polypeptide binding]; other site 323850002967 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 323850002968 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 323850002969 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 323850002970 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 323850002971 active site 323850002972 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 323850002973 Major Facilitator Superfamily; Region: MFS_1; pfam07690 323850002974 putative substrate translocation pore; other site 323850002975 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 323850002976 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 323850002977 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 323850002978 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 323850002979 active site 323850002980 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 323850002981 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 323850002982 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 323850002983 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 323850002984 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 323850002985 CoenzymeA binding site [chemical binding]; other site 323850002986 subunit interaction site [polypeptide binding]; other site 323850002987 PHB binding site; other site 323850002988 Domain of unknown function (DUF368); Region: DUF368; pfam04018 323850002989 Protein of unknown function (DUF3634); Region: DUF3634; pfam12321 323850002990 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 323850002991 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 323850002992 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 323850002993 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 323850002994 tetrameric interface [polypeptide binding]; other site 323850002995 NAD binding site [chemical binding]; other site 323850002996 catalytic residues [active] 323850002997 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 323850002998 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 323850002999 inhibitor-cofactor binding pocket; inhibition site 323850003000 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850003001 catalytic residue [active] 323850003002 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 323850003003 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 323850003004 NAD(P) binding site [chemical binding]; other site 323850003005 catalytic residues [active] 323850003006 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 323850003007 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 323850003008 active site residue [active] 323850003009 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 323850003010 active site residue [active] 323850003011 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 323850003012 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 323850003013 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 323850003014 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 323850003015 non-specific DNA binding site [nucleotide binding]; other site 323850003016 salt bridge; other site 323850003017 sequence-specific DNA binding site [nucleotide binding]; other site 323850003018 Cupin domain; Region: Cupin_2; pfam07883 323850003019 Peptidase C26; Region: Peptidase_C26; pfam07722 323850003020 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 323850003021 catalytic triad [active] 323850003022 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 323850003023 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 323850003024 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 323850003025 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 323850003026 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 323850003027 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323850003028 Walker A/P-loop; other site 323850003029 ATP binding site [chemical binding]; other site 323850003030 Q-loop/lid; other site 323850003031 ABC transporter signature motif; other site 323850003032 Walker B; other site 323850003033 D-loop; other site 323850003034 H-loop/switch region; other site 323850003035 TOBE domain; Region: TOBE_2; pfam08402 323850003036 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 323850003037 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323850003038 dimer interface [polypeptide binding]; other site 323850003039 conserved gate region; other site 323850003040 putative PBP binding loops; other site 323850003041 ABC-ATPase subunit interface; other site 323850003042 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 323850003043 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323850003044 dimer interface [polypeptide binding]; other site 323850003045 conserved gate region; other site 323850003046 putative PBP binding loops; other site 323850003047 ABC-ATPase subunit interface; other site 323850003048 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 323850003049 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 323850003050 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 323850003051 SPFH domain / Band 7 family; Region: Band_7; pfam01145 323850003052 Response regulator receiver domain; Region: Response_reg; pfam00072 323850003053 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 323850003054 active site 323850003055 phosphorylation site [posttranslational modification] 323850003056 intermolecular recognition site; other site 323850003057 dimerization interface [polypeptide binding]; other site 323850003058 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 323850003059 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 323850003060 putative active site [active] 323850003061 heme pocket [chemical binding]; other site 323850003062 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850003063 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850003064 metal binding site [ion binding]; metal-binding site 323850003065 active site 323850003066 I-site; other site 323850003067 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 323850003068 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 323850003069 putative active site [active] 323850003070 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323850003071 heme pocket [chemical binding]; other site 323850003072 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 323850003073 dimer interface [polypeptide binding]; other site 323850003074 phosphorylation site [posttranslational modification] 323850003075 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 323850003076 ATP binding site [chemical binding]; other site 323850003077 Mg2+ binding site [ion binding]; other site 323850003078 G-X-G motif; other site 323850003079 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323850003080 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 323850003081 active site 323850003082 phosphorylation site [posttranslational modification] 323850003083 intermolecular recognition site; other site 323850003084 dimerization interface [polypeptide binding]; other site 323850003085 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 323850003086 Response regulator receiver domain; Region: Response_reg; pfam00072 323850003087 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 323850003088 active site 323850003089 phosphorylation site [posttranslational modification] 323850003090 intermolecular recognition site; other site 323850003091 dimerization interface [polypeptide binding]; other site 323850003092 hypothetical protein; Provisional; Region: PRK08262 323850003093 M20 Peptidase, carboxypeptidase yscS; Region: M20_yscS; cd05674 323850003094 metal binding site [ion binding]; metal-binding site 323850003095 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 323850003096 Amidohydrolase; Region: Amidohydro_4; pfam13147 323850003097 active site 323850003098 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 323850003099 Beta-lactamase; Region: Beta-lactamase; pfam00144 323850003100 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 323850003101 PLD-like domain; Region: PLDc_2; pfam13091 323850003102 putative active site [active] 323850003103 catalytic site [active] 323850003104 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 323850003105 PLD-like domain; Region: PLDc_2; pfam13091 323850003106 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 323850003107 putative active site [active] 323850003108 putative active site [active] 323850003109 catalytic site [active] 323850003110 catalytic site [active] 323850003111 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 323850003112 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 323850003113 MobA/MobL family; Region: MobA_MobL; pfam03389 323850003114 multiple promoter invertase; Provisional; Region: mpi; PRK13413 323850003115 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 323850003116 catalytic residues [active] 323850003117 catalytic nucleophile [active] 323850003118 Presynaptic Site I dimer interface [polypeptide binding]; other site 323850003119 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 323850003120 Synaptic Flat tetramer interface [polypeptide binding]; other site 323850003121 Synaptic Site I dimer interface [polypeptide binding]; other site 323850003122 DNA binding site [nucleotide binding] 323850003123 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 323850003124 DNA-binding interface [nucleotide binding]; DNA binding site 323850003125 BsuBI/PstI restriction endonuclease C-terminus; Region: BsuBI_PstI_RE; pfam06616 323850003126 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 323850003127 Methyltransferase domain; Region: Methyltransf_26; pfam13659 323850003128 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 323850003129 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 323850003130 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 323850003131 active site 323850003132 DNA binding site [nucleotide binding] 323850003133 Int/Topo IB signature motif; other site 323850003134 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 323850003135 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 323850003136 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 323850003137 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 323850003138 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323850003139 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 323850003140 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 323850003141 DNA binding residues [nucleotide binding] 323850003142 DNA primase; Validated; Region: dnaG; PRK05667 323850003143 CHC2 zinc finger; Region: zf-CHC2; pfam01807 323850003144 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 323850003145 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 323850003146 active site 323850003147 metal binding site [ion binding]; metal-binding site 323850003148 interdomain interaction site; other site 323850003149 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 323850003150 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 323850003151 Yqey-like protein; Region: YqeY; pfam09424 323850003152 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 323850003153 UGMP family protein; Validated; Region: PRK09604 323850003154 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 323850003155 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 323850003156 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 323850003157 homooctamer interface [polypeptide binding]; other site 323850003158 active site 323850003159 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 323850003160 catalytic center binding site [active] 323850003161 ATP binding site [chemical binding]; other site 323850003162 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 323850003163 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 323850003164 Methyltransferase domain; Region: Methyltransf_11; pfam08241 323850003165 L,D-transpeptidase; Provisional; Region: PRK10190 323850003166 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323850003167 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 323850003168 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 323850003169 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 323850003170 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 323850003171 active site 323850003172 NTP binding site [chemical binding]; other site 323850003173 metal binding triad [ion binding]; metal-binding site 323850003174 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 323850003175 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323850003176 Zn2+ binding site [ion binding]; other site 323850003177 Mg2+ binding site [ion binding]; other site 323850003178 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 323850003179 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 323850003180 Walker A motif; other site 323850003181 ATP binding site [chemical binding]; other site 323850003182 Walker B motif; other site 323850003183 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 323850003184 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 323850003185 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 323850003186 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 323850003187 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 323850003188 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 323850003189 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 323850003190 inhibitor-cofactor binding pocket; inhibition site 323850003191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850003192 catalytic residue [active] 323850003193 aspartate carbamoyltransferase; Provisional; Region: PRK08192 323850003194 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 323850003195 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 323850003196 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 323850003197 non-specific DNA binding site [nucleotide binding]; other site 323850003198 salt bridge; other site 323850003199 sequence-specific DNA binding site [nucleotide binding]; other site 323850003200 2TM domain; Region: 2TM; pfam13239 323850003201 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 323850003202 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 323850003203 Cl- selectivity filter; other site 323850003204 Cl- binding residues [ion binding]; other site 323850003205 pore gating glutamate residue; other site 323850003206 dimer interface [polypeptide binding]; other site 323850003207 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 323850003208 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 323850003209 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 323850003210 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 323850003211 putative peptidase; Provisional; Region: PRK11649 323850003212 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 323850003213 Peptidase family M23; Region: Peptidase_M23; pfam01551 323850003214 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 323850003215 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 323850003216 active site 323850003217 HIGH motif; other site 323850003218 dimer interface [polypeptide binding]; other site 323850003219 KMSKS motif; other site 323850003220 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 323850003221 RNA binding surface [nucleotide binding]; other site 323850003222 SnoaL-like domain; Region: SnoaL_2; pfam12680 323850003223 hypothetical protein; Provisional; Region: PRK10578 323850003224 UPF0126 domain; Region: UPF0126; pfam03458 323850003225 UPF0126 domain; Region: UPF0126; pfam03458 323850003226 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 323850003227 Cobalamin biosynthesis protein CobD/CbiB [Coenzyme metabolism]; Region: CbiB; COG1270 323850003228 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 323850003229 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 323850003230 Domain of unknown function (DUF4326); Region: DUF4326; pfam14216 323850003231 Protein of unknown function, DUF488; Region: DUF488; pfam04343 323850003232 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 323850003233 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 323850003234 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 323850003235 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323850003236 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 323850003237 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 323850003238 active site 323850003239 dimer interface [polypeptide binding]; other site 323850003240 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 323850003241 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 323850003242 active site 323850003243 FMN binding site [chemical binding]; other site 323850003244 substrate binding site [chemical binding]; other site 323850003245 3Fe-4S cluster binding site [ion binding]; other site 323850003246 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 323850003247 domain interface; other site 323850003248 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 323850003249 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 323850003250 FeS/SAM binding site; other site 323850003251 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 323850003252 putative binding surface; other site 323850003253 active site 323850003254 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 323850003255 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850003256 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 323850003257 dimerization interface [polypeptide binding]; other site 323850003258 cyclase homology domain; Region: CHD; cd07302 323850003259 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 323850003260 nucleotidyl binding site; other site 323850003261 metal binding site [ion binding]; metal-binding site 323850003262 dimer interface [polypeptide binding]; other site 323850003263 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 323850003264 putative DNA-binding cleft [nucleotide binding]; other site 323850003265 putative DNA clevage site; other site 323850003266 molecular lever; other site 323850003267 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 323850003268 putative active site [active] 323850003269 Ap4A binding site [chemical binding]; other site 323850003270 nudix motif; other site 323850003271 putative metal binding site [ion binding]; other site 323850003272 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 323850003273 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 323850003274 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 323850003275 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 323850003276 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 323850003277 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 323850003278 thymidylate synthase; Reviewed; Region: thyA; PRK01827 323850003279 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 323850003280 dimerization interface [polypeptide binding]; other site 323850003281 active site 323850003282 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 323850003283 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 323850003284 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850003285 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 323850003286 dimerization interface [polypeptide binding]; other site 323850003287 Uncharacterized conserved protein [Function unknown]; Region: COG2938 323850003288 L-aspartate oxidase; Provisional; Region: PRK09077 323850003289 L-aspartate oxidase; Provisional; Region: PRK06175 323850003290 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 323850003291 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 323850003292 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323850003293 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 323850003294 DNA binding residues [nucleotide binding] 323850003295 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 323850003296 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 323850003297 anti-sigma E factor; Provisional; Region: rseB; PRK09455 323850003298 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 323850003299 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 323850003300 GTP-binding protein LepA; Provisional; Region: PRK05433 323850003301 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 323850003302 G1 box; other site 323850003303 putative GEF interaction site [polypeptide binding]; other site 323850003304 GTP/Mg2+ binding site [chemical binding]; other site 323850003305 Switch I region; other site 323850003306 G2 box; other site 323850003307 G3 box; other site 323850003308 Switch II region; other site 323850003309 G4 box; other site 323850003310 G5 box; other site 323850003311 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 323850003312 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 323850003313 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 323850003314 signal peptidase I; Provisional; Region: PRK10861 323850003315 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 323850003316 Catalytic site [active] 323850003317 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 323850003318 ribonuclease III; Reviewed; Region: rnc; PRK00102 323850003319 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 323850003320 dimerization interface [polypeptide binding]; other site 323850003321 active site 323850003322 metal binding site [ion binding]; metal-binding site 323850003323 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 323850003324 dsRNA binding site [nucleotide binding]; other site 323850003325 GTPase Era; Reviewed; Region: era; PRK00089 323850003326 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 323850003327 G1 box; other site 323850003328 GTP/Mg2+ binding site [chemical binding]; other site 323850003329 Switch I region; other site 323850003330 G2 box; other site 323850003331 Switch II region; other site 323850003332 G3 box; other site 323850003333 G4 box; other site 323850003334 G5 box; other site 323850003335 KH domain; Region: KH_2; pfam07650 323850003336 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 323850003337 Recombination protein O N terminal; Region: RecO_N; pfam11967 323850003338 Recombination protein O C terminal; Region: RecO_C; pfam02565 323850003339 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 323850003340 active site 323850003341 hydrophilic channel; other site 323850003342 dimerization interface [polypeptide binding]; other site 323850003343 catalytic residues [active] 323850003344 active site lid [active] 323850003345 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 323850003346 Protein of unknown function (DUF962); Region: DUF962; cl01879 323850003347 hypothetical protein; Provisional; Region: PRK11573 323850003348 Domain of unknown function DUF21; Region: DUF21; pfam01595 323850003349 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 323850003350 Transporter associated domain; Region: CorC_HlyC; smart01091 323850003351 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 323850003352 signal recognition particle protein; Provisional; Region: PRK10867 323850003353 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 323850003354 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 323850003355 P loop; other site 323850003356 GTP binding site [chemical binding]; other site 323850003357 Signal peptide binding domain; Region: SRP_SPB; pfam02978 323850003358 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 323850003359 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 323850003360 RimM N-terminal domain; Region: RimM; pfam01782 323850003361 PRC-barrel domain; Region: PRC; pfam05239 323850003362 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 323850003363 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 323850003364 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 323850003365 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 323850003366 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 323850003367 Chorismate mutase type II; Region: CM_2; cl00693 323850003368 prephenate dehydrogenase; Validated; Region: PRK08507 323850003369 hybrid cluster protein; Provisional; Region: PRK05290 323850003370 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 323850003371 ACS interaction site; other site 323850003372 CODH interaction site; other site 323850003373 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 323850003374 hybrid metal cluster; other site 323850003375 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_1; cd06215 323850003376 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 323850003377 FAD binding pocket [chemical binding]; other site 323850003378 FAD binding motif [chemical binding]; other site 323850003379 phosphate binding motif [ion binding]; other site 323850003380 beta-alpha-beta structure motif; other site 323850003381 NAD binding pocket [chemical binding]; other site 323850003382 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 323850003383 catalytic loop [active] 323850003384 iron binding site [ion binding]; other site 323850003385 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 323850003386 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 323850003387 Prephenate dehydratase; Region: PDT; pfam00800 323850003388 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 323850003389 putative L-Phe binding site [chemical binding]; other site 323850003390 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 323850003391 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 323850003392 30S subunit binding site; other site 323850003393 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 323850003394 Cytochrome C' Region: Cytochrom_C_2; pfam01322 323850003395 Trp repressor protein; Region: Trp_repressor; pfam01371 323850003396 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 323850003397 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 323850003398 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 323850003399 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 323850003400 putative catalytic residues [active] 323850003401 putative nucleotide binding site [chemical binding]; other site 323850003402 putative aspartate binding site [chemical binding]; other site 323850003403 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 323850003404 dimer interface [polypeptide binding]; other site 323850003405 putative threonine allosteric regulatory site; other site 323850003406 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 323850003407 putative threonine allosteric regulatory site; other site 323850003408 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 323850003409 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 323850003410 homoserine kinase; Provisional; Region: PRK01212 323850003411 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 323850003412 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 323850003413 threonine synthase; Validated; Region: PRK09225 323850003414 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 323850003415 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323850003416 catalytic residue [active] 323850003417 endonuclease IV; Provisional; Region: PRK01060 323850003418 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 323850003419 AP (apurinic/apyrimidinic) site pocket; other site 323850003420 DNA interaction; other site 323850003421 Metal-binding active site; metal-binding site 323850003422 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 323850003423 PAS domain; Region: PAS; smart00091 323850003424 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 323850003425 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 323850003426 dimer interface [polypeptide binding]; other site 323850003427 phosphorylation site [posttranslational modification] 323850003428 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 323850003429 ATP binding site [chemical binding]; other site 323850003430 Mg2+ binding site [ion binding]; other site 323850003431 G-X-G motif; other site 323850003432 Response regulator receiver domain; Region: Response_reg; pfam00072 323850003433 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 323850003434 active site 323850003435 phosphorylation site [posttranslational modification] 323850003436 intermolecular recognition site; other site 323850003437 dimerization interface [polypeptide binding]; other site 323850003438 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 323850003439 Response regulator receiver domain; Region: Response_reg; pfam00072 323850003440 active site 323850003441 phosphorylation site [posttranslational modification] 323850003442 intermolecular recognition site; other site 323850003443 dimerization interface [polypeptide binding]; other site 323850003444 Hemerythrin-like domain; Region: Hr-like; cd12108 323850003445 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 323850003446 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 323850003447 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 323850003448 active site 323850003449 dimer interface [polypeptide binding]; other site 323850003450 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 323850003451 dimer interface [polypeptide binding]; other site 323850003452 active site 323850003453 transaldolase-like protein; Provisional; Region: PTZ00411 323850003454 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 323850003455 active site 323850003456 dimer interface [polypeptide binding]; other site 323850003457 catalytic residue [active] 323850003458 outer membrane protein A; Reviewed; Region: PRK10808 323850003459 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 323850003460 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323850003461 ligand binding site [chemical binding]; other site 323850003462 putative phosphoketolase; Provisional; Region: PRK05261 323850003463 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 323850003464 TPP-binding site; other site 323850003465 XFP C-terminal domain; Region: XFP_C; pfam09363 323850003466 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 323850003467 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 323850003468 hypothetical protein; Validated; Region: PRK02101 323850003469 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 323850003470 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 323850003471 PA/protease or protease-like domain interface [polypeptide binding]; other site 323850003472 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 323850003473 Peptidase family M28; Region: Peptidase_M28; pfam04389 323850003474 metal binding site [ion binding]; metal-binding site 323850003475 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 323850003476 dimerization interface [polypeptide binding]; other site 323850003477 putative DNA binding site [nucleotide binding]; other site 323850003478 putative Zn2+ binding site [ion binding]; other site 323850003479 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 323850003480 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 323850003481 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 323850003482 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 323850003483 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 323850003484 active site 323850003485 Riboflavin kinase; Region: Flavokinase; smart00904 323850003486 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 323850003487 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323850003488 active site 323850003489 HIGH motif; other site 323850003490 nucleotide binding site [chemical binding]; other site 323850003491 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 323850003492 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 323850003493 active site 323850003494 KMSKS motif; other site 323850003495 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 323850003496 tRNA binding surface [nucleotide binding]; other site 323850003497 anticodon binding site; other site 323850003498 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 323850003499 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 323850003500 lipoprotein signal peptidase; Provisional; Region: PRK14787 323850003501 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 323850003502 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 323850003503 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 323850003504 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 323850003505 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 323850003506 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 323850003507 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 323850003508 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 323850003509 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 323850003510 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 323850003511 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 323850003512 Type II transport protein GspH; Region: GspH; pfam12019 323850003513 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 323850003514 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 323850003515 Type II transport protein GspH; Region: GspH; pfam12019 323850003516 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 323850003517 Nitrogen regulatory protein P-II; Region: P-II; smart00938 323850003518 Transcriptional regulators [Transcription]; Region: PurR; COG1609 323850003519 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 323850003520 DNA binding site [nucleotide binding] 323850003521 domain linker motif; other site 323850003522 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 323850003523 putative dimerization interface [polypeptide binding]; other site 323850003524 putative ligand binding site [chemical binding]; other site 323850003525 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 323850003526 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 323850003527 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 323850003528 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 323850003529 SapC; Region: SapC; pfam07277 323850003530 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 323850003531 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 323850003532 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a...; Region: GH20_Sm-chitobiase-like; cd06569 323850003533 active site 323850003534 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 323850003535 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 323850003536 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 323850003537 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 323850003538 active site 323850003539 dimer interface [polypeptide binding]; other site 323850003540 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 323850003541 L-fucose transporter; Provisional; Region: PRK10133; cl17665 323850003542 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 323850003543 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 323850003544 hypothetical protein; Provisional; Region: PRK03757 323850003545 oxidative damage protection protein; Provisional; Region: PRK05408 323850003546 adenine DNA glycosylase; Provisional; Region: PRK10880 323850003547 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 323850003548 minor groove reading motif; other site 323850003549 helix-hairpin-helix signature motif; other site 323850003550 substrate binding pocket [chemical binding]; other site 323850003551 active site 323850003552 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 323850003553 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 323850003554 DNA binding and oxoG recognition site [nucleotide binding] 323850003555 Methyltransferase domain; Region: Methyltransf_31; pfam13847 323850003556 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 323850003557 S-adenosylmethionine binding site [chemical binding]; other site 323850003558 hypothetical protein; Provisional; Region: PRK11702 323850003559 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 323850003560 glutaminase; Provisional; Region: PRK00971 323850003561 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 323850003562 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850003563 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850003564 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 323850003565 putative effector binding pocket; other site 323850003566 dimerization interface [polypeptide binding]; other site 323850003567 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 323850003568 HemN family oxidoreductase; Provisional; Region: PRK05660 323850003569 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 323850003570 FeS/SAM binding site; other site 323850003571 HemN C-terminal domain; Region: HemN_C; pfam06969 323850003572 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 323850003573 active site 323850003574 dimerization interface [polypeptide binding]; other site 323850003575 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 323850003576 hypothetical protein; Validated; Region: PRK05090 323850003577 YGGT family; Region: YGGT; pfam02325 323850003578 YGGT family; Region: YGGT; pfam02325 323850003579 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 323850003580 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 323850003581 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 323850003582 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323850003583 catalytic residue [active] 323850003584 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 323850003585 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 323850003586 Walker A motif; other site 323850003587 ATP binding site [chemical binding]; other site 323850003588 Walker B motif; other site 323850003589 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 323850003590 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 323850003591 Walker A motif; other site 323850003592 ATP binding site [chemical binding]; other site 323850003593 Walker B motif; other site 323850003594 ferrochelatase; Reviewed; Region: hemH; PRK00035 323850003595 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 323850003596 C-terminal domain interface [polypeptide binding]; other site 323850003597 active site 323850003598 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 323850003599 active site 323850003600 N-terminal domain interface [polypeptide binding]; other site 323850003601 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323850003602 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323850003603 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323850003604 Divergent AAA domain; Region: AAA_4; pfam04326 323850003605 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 323850003606 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 323850003607 hypothetical protein; Validated; Region: PRK00228 323850003608 translation initiation factor Sui1; Validated; Region: PRK06824 323850003609 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 323850003610 putative rRNA binding site [nucleotide binding]; other site 323850003611 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 323850003612 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 323850003613 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850003614 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850003615 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 323850003616 dimerization interface [polypeptide binding]; other site 323850003617 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 323850003618 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 323850003619 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 323850003620 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323850003621 ligand binding site [chemical binding]; other site 323850003622 mechanosensitive channel MscS; Provisional; Region: PRK10334 323850003623 Conserved TM helix; Region: TM_helix; pfam05552 323850003624 Mechanosensitive ion channel; Region: MS_channel; pfam00924 323850003625 Predicted membrane protein [Function unknown]; Region: COG2860 323850003626 UPF0126 domain; Region: UPF0126; pfam03458 323850003627 UPF0126 domain; Region: UPF0126; pfam03458 323850003628 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 323850003629 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 323850003630 tetramer interface [polypeptide binding]; other site 323850003631 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850003632 catalytic residue [active] 323850003633 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 323850003634 dimer interface [polypeptide binding]; other site 323850003635 Alkaline phosphatase homologues; Region: alkPPc; smart00098 323850003636 active site 323850003637 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 323850003638 dimer interface [polypeptide binding]; other site 323850003639 Alkaline phosphatase homologues; Region: alkPPc; smart00098 323850003640 active site 323850003641 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 323850003642 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 323850003643 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323850003644 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323850003645 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323850003646 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850003647 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 323850003648 Protein export membrane protein; Region: SecD_SecF; cl14618 323850003649 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 323850003650 DNA-binding site [nucleotide binding]; DNA binding site 323850003651 RNA-binding motif; other site 323850003652 putative alcohol dehydrogenase; Provisional; Region: PRK09860 323850003653 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 323850003654 dimer interface [polypeptide binding]; other site 323850003655 active site 323850003656 metal binding site [ion binding]; metal-binding site 323850003657 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 323850003658 glycogen branching enzyme; Provisional; Region: PRK05402 323850003659 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 323850003660 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 323850003661 active site 323850003662 catalytic site [active] 323850003663 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 323850003664 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 323850003665 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 323850003666 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 323850003667 active site 323850003668 catalytic site [active] 323850003669 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 323850003670 homodimer interface [polypeptide binding]; other site 323850003671 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 323850003672 active site pocket [active] 323850003673 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 323850003674 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 323850003675 ligand binding site; other site 323850003676 oligomer interface; other site 323850003677 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 323850003678 dimer interface [polypeptide binding]; other site 323850003679 N-terminal domain interface [polypeptide binding]; other site 323850003680 sulfate 1 binding site; other site 323850003681 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 323850003682 glycogen synthase; Provisional; Region: glgA; PRK00654 323850003683 ADP-binding pocket [chemical binding]; other site 323850003684 homodimer interface [polypeptide binding]; other site 323850003685 Uncharacterized conserved protein [Function unknown]; Region: COG1432 323850003686 LabA_like proteins; Region: LabA; cd10911 323850003687 putative metal binding site [ion binding]; other site 323850003688 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 323850003689 binding surface 323850003690 TPR motif; other site 323850003691 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 323850003692 binding surface 323850003693 TPR motif; other site 323850003694 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 323850003695 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 323850003696 SEC-C motif; Region: SEC-C; pfam02810 323850003697 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 323850003698 SEC-C motif; Region: SEC-C; pfam02810 323850003699 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323850003700 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323850003701 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850003702 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323850003703 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 323850003704 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 323850003705 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 323850003706 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 323850003707 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 323850003708 Shewanella-like phosphatases, metallophosphatase domain; Region: MPP_Shelphs; cd07425 323850003709 active site 323850003710 metal binding site [ion binding]; metal-binding site 323850003711 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 323850003712 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323850003713 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323850003714 ABC transporter; Region: ABC_tran_2; pfam12848 323850003715 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323850003716 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 323850003717 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 323850003718 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 323850003719 dimer interface [polypeptide binding]; other site 323850003720 active site 323850003721 glycine-pyridoxal phosphate binding site [chemical binding]; other site 323850003722 folate binding site [chemical binding]; other site 323850003723 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 323850003724 ATP cone domain; Region: ATP-cone; pfam03477 323850003725 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 323850003726 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 323850003727 catalytic motif [active] 323850003728 Zn binding site [ion binding]; other site 323850003729 RibD C-terminal domain; Region: RibD_C; cl17279 323850003730 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 323850003731 Lumazine binding domain; Region: Lum_binding; pfam00677 323850003732 Lumazine binding domain; Region: Lum_binding; pfam00677 323850003733 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 323850003734 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 323850003735 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 323850003736 dimerization interface [polypeptide binding]; other site 323850003737 active site 323850003738 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 323850003739 homopentamer interface [polypeptide binding]; other site 323850003740 active site 323850003741 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 323850003742 putative RNA binding site [nucleotide binding]; other site 323850003743 thiamine monophosphate kinase; Provisional; Region: PRK05731 323850003744 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 323850003745 ATP binding site [chemical binding]; other site 323850003746 dimerization interface [polypeptide binding]; other site 323850003747 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 323850003748 tetramer interfaces [polypeptide binding]; other site 323850003749 binuclear metal-binding site [ion binding]; other site 323850003750 Uncharacterized conserved protein [Function unknown]; Region: COG3791 323850003751 recombination and repair protein; Provisional; Region: PRK10869 323850003752 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 323850003753 Walker A/P-loop; other site 323850003754 ATP binding site [chemical binding]; other site 323850003755 Q-loop/lid; other site 323850003756 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 323850003757 ABC transporter signature motif; other site 323850003758 Walker B; other site 323850003759 D-loop; other site 323850003760 H-loop/switch region; other site 323850003761 Predicted permeases [General function prediction only]; Region: COG0679 323850003762 Protein of unknown function (DUF3319); Region: DUF3319; pfam11782 323850003763 Protein of unknown function (DUF416); Region: DUF416; pfam04222 323850003764 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 323850003765 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 323850003766 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 323850003767 dimerization interface [polypeptide binding]; other site 323850003768 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 323850003769 dimer interface [polypeptide binding]; other site 323850003770 phosphorylation site [posttranslational modification] 323850003771 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 323850003772 ATP binding site [chemical binding]; other site 323850003773 Mg2+ binding site [ion binding]; other site 323850003774 G-X-G motif; other site 323850003775 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 323850003776 active site 323850003777 phosphorylation site [posttranslational modification] 323850003778 intermolecular recognition site; other site 323850003779 dimerization interface [polypeptide binding]; other site 323850003780 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 323850003781 putative binding surface; other site 323850003782 active site 323850003783 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 323850003784 TRAM domain; Region: TRAM; pfam01938 323850003785 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 323850003786 S-adenosylmethionine binding site [chemical binding]; other site 323850003787 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 323850003788 HD domain; Region: HD_4; pfam13328 323850003789 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 323850003790 synthetase active site [active] 323850003791 NTP binding site [chemical binding]; other site 323850003792 metal binding site [ion binding]; metal-binding site 323850003793 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 323850003794 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 323850003795 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 323850003796 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 323850003797 homodimer interface [polypeptide binding]; other site 323850003798 metal binding site [ion binding]; metal-binding site 323850003799 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 323850003800 homodimer interface [polypeptide binding]; other site 323850003801 active site 323850003802 putative chemical substrate binding site [chemical binding]; other site 323850003803 metal binding site [ion binding]; metal-binding site 323850003804 CTP synthetase; Validated; Region: pyrG; PRK05380 323850003805 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 323850003806 Catalytic site [active] 323850003807 active site 323850003808 UTP binding site [chemical binding]; other site 323850003809 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 323850003810 active site 323850003811 putative oxyanion hole; other site 323850003812 catalytic triad [active] 323850003813 enolase; Provisional; Region: eno; PRK00077 323850003814 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 323850003815 dimer interface [polypeptide binding]; other site 323850003816 metal binding site [ion binding]; metal-binding site 323850003817 substrate binding pocket [chemical binding]; other site 323850003818 Septum formation initiator; Region: DivIC; cl17659 323850003819 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 323850003820 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 323850003821 substrate binding site; other site 323850003822 dimer interface; other site 323850003823 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 323850003824 homotrimer interaction site [polypeptide binding]; other site 323850003825 zinc binding site [ion binding]; other site 323850003826 CDP-binding sites; other site 323850003827 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 323850003828 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 323850003829 Permutation of conserved domain; other site 323850003830 active site 323850003831 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 323850003832 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 323850003833 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 323850003834 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 323850003835 S-adenosylmethionine binding site [chemical binding]; other site 323850003836 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 323850003837 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323850003838 Peptidase family M23; Region: Peptidase_M23; pfam01551 323850003839 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 323850003840 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 323850003841 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323850003842 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 323850003843 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 323850003844 DNA binding residues [nucleotide binding] 323850003845 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 323850003846 MutS domain I; Region: MutS_I; pfam01624 323850003847 MutS domain II; Region: MutS_II; pfam05188 323850003848 MutS domain III; Region: MutS_III; pfam05192 323850003849 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 323850003850 Walker A/P-loop; other site 323850003851 ATP binding site [chemical binding]; other site 323850003852 Q-loop/lid; other site 323850003853 ABC transporter signature motif; other site 323850003854 Walker B; other site 323850003855 D-loop; other site 323850003856 H-loop/switch region; other site 323850003857 recombinase A; Provisional; Region: recA; PRK09354 323850003858 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 323850003859 hexamer interface [polypeptide binding]; other site 323850003860 Walker A motif; other site 323850003861 ATP binding site [chemical binding]; other site 323850003862 Walker B motif; other site 323850003863 recombination regulator RecX; Reviewed; Region: recX; PRK00117 323850003864 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 323850003865 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 323850003866 motif 1; other site 323850003867 active site 323850003868 motif 2; other site 323850003869 motif 3; other site 323850003870 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 323850003871 DHHA1 domain; Region: DHHA1; pfam02272 323850003872 carbon storage regulator; Provisional; Region: PRK01712 323850003873 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 323850003874 oxaloacetate decarboxylase; Provisional; Region: PRK14040 323850003875 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 323850003876 active site 323850003877 catalytic residues [active] 323850003878 metal binding site [ion binding]; metal-binding site 323850003879 homodimer binding site [polypeptide binding]; other site 323850003880 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 323850003881 carboxyltransferase (CT) interaction site; other site 323850003882 biotinylation site [posttranslational modification]; other site 323850003883 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 323850003884 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 323850003885 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 323850003886 Predicted membrane protein [Function unknown]; Region: COG1238 323850003887 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 323850003888 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 323850003889 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 323850003890 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 323850003891 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 323850003892 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 323850003893 glutamate--cysteine ligase; Provisional; Region: PRK02107 323850003894 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 323850003895 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 323850003896 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323850003897 catalytic residue [active] 323850003898 AIR carboxylase; Region: AIRC; pfam00731 323850003899 RNA polymerase sigma factor; Provisional; Region: PRK12513 323850003900 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323850003901 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; cl17257 323850003902 DNA binding residues [nucleotide binding] 323850003903 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 323850003904 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323850003905 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 323850003906 structural tetrad; other site 323850003907 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323850003908 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 323850003909 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 323850003910 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 323850003911 protein binding site [polypeptide binding]; other site 323850003912 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 323850003913 Domain interface; other site 323850003914 Peptide binding site; other site 323850003915 Active site tetrad [active] 323850003916 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 323850003917 OsmC-like protein; Region: OsmC; pfam02566 323850003918 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 323850003919 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 323850003920 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 323850003921 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 323850003922 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 323850003923 30S subunit binding site; other site 323850003924 Peptidase M35 domain of peptidyl-Lys metalloendopeptidases; Region: M35_peptidyl-Lys; cd11306 323850003925 active site 323850003926 Zn binding site [ion binding]; other site 323850003927 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 323850003928 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850003929 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 323850003930 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 323850003931 putative dimerization interface [polypeptide binding]; other site 323850003932 Domain of unknown function (DUF897); Region: DUF897; pfam05982 323850003933 AIR carboxylase; Region: AIRC; pfam00731 323850003934 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 323850003935 ATP-grasp domain; Region: ATP-grasp; pfam02222 323850003936 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; cl17320 323850003937 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 323850003938 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 323850003939 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 323850003940 active site 323850003941 DNA binding site [nucleotide binding] 323850003942 Int/Topo IB signature motif; other site 323850003943 Protein of unknown function (DUF2787); Region: DUF2787; pfam10980 323850003944 hypothetical protein; Reviewed; Region: PRK00024 323850003945 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 323850003946 MPN+ (JAMM) motif; other site 323850003947 Zinc-binding site [ion binding]; other site 323850003948 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 323850003949 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 323850003950 DNA methylase; Region: N6_N4_Mtase; cl17433 323850003951 DNA methylase; Region: N6_N4_Mtase; cl17433 323850003952 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 323850003953 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 323850003954 Competence protein CoiA-like family; Region: CoiA; cl11541 323850003955 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 323850003956 Part of AAA domain; Region: AAA_19; pfam13245 323850003957 Family description; Region: UvrD_C_2; pfam13538 323850003958 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 323850003959 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 323850003960 non-specific DNA binding site [nucleotide binding]; other site 323850003961 salt bridge; other site 323850003962 sequence-specific DNA binding site [nucleotide binding]; other site 323850003963 integrase; Provisional; Region: PRK09692 323850003964 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 323850003965 active site 323850003966 Int/Topo IB signature motif; other site 323850003967 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 323850003968 SmpB-tmRNA interface; other site 323850003969 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 323850003970 putative coenzyme Q binding site [chemical binding]; other site 323850003971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 323850003972 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 323850003973 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 323850003974 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 323850003975 active site 323850003976 SAM binding site [chemical binding]; other site 323850003977 homodimer interface [polypeptide binding]; other site 323850003978 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 323850003979 dimer interface [polypeptide binding]; other site 323850003980 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 323850003981 binding surface 323850003982 TPR motif; other site 323850003983 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850003984 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850003985 metal binding site [ion binding]; metal-binding site 323850003986 active site 323850003987 I-site; other site 323850003988 malate synthase A; Region: malate_syn_A; TIGR01344 323850003989 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 323850003990 active site 323850003991 isocitrate lyase; Provisional; Region: PRK15063 323850003992 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 323850003993 tetramer interface [polypeptide binding]; other site 323850003994 active site 323850003995 Mg2+/Mn2+ binding site [ion binding]; other site 323850003996 HDOD domain; Region: HDOD; pfam08668 323850003997 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 323850003998 SnoaL-like domain; Region: SnoaL_3; pfam13474 323850003999 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 323850004000 ParA-like protein; Provisional; Region: PHA02518 323850004001 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 323850004002 P-loop; other site 323850004003 Magnesium ion binding site [ion binding]; other site 323850004004 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 323850004005 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 323850004006 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850004007 Coenzyme A binding pocket [chemical binding]; other site 323850004008 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 323850004009 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 323850004010 active site 323850004011 metal binding site [ion binding]; metal-binding site 323850004012 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 323850004013 Domain of unknown function DUF21; Region: DUF21; pfam01595 323850004014 FOG: CBS domain [General function prediction only]; Region: COG0517 323850004015 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 323850004016 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 323850004017 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 323850004018 FeS/SAM binding site; other site 323850004019 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 323850004020 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 323850004021 binding surface 323850004022 TPR motif; other site 323850004023 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 323850004024 binding surface 323850004025 TPR motif; other site 323850004026 cytoskeletal protein RodZ; Provisional; Region: PRK10856 323850004027 Helix-turn-helix domain; Region: HTH_25; pfam13413 323850004028 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 323850004029 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 323850004030 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 323850004031 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 323850004032 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 323850004033 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 323850004034 dimer interface [polypeptide binding]; other site 323850004035 motif 1; other site 323850004036 active site 323850004037 motif 2; other site 323850004038 motif 3; other site 323850004039 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 323850004040 anticodon binding site; other site 323850004041 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 323850004042 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 323850004043 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 323850004044 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 323850004045 active site 323850004046 Trp docking motif [polypeptide binding]; other site 323850004047 GTP-binding protein Der; Reviewed; Region: PRK00093 323850004048 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 323850004049 G1 box; other site 323850004050 GTP/Mg2+ binding site [chemical binding]; other site 323850004051 Switch I region; other site 323850004052 G2 box; other site 323850004053 Switch II region; other site 323850004054 G3 box; other site 323850004055 G4 box; other site 323850004056 G5 box; other site 323850004057 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 323850004058 G1 box; other site 323850004059 GTP/Mg2+ binding site [chemical binding]; other site 323850004060 Switch I region; other site 323850004061 G2 box; other site 323850004062 G3 box; other site 323850004063 Switch II region; other site 323850004064 G4 box; other site 323850004065 G5 box; other site 323850004066 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 323850004067 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 323850004068 generic binding surface II; other site 323850004069 generic binding surface I; other site 323850004070 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 323850004071 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 323850004072 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 323850004073 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 323850004074 active site 323850004075 GMP synthase; Reviewed; Region: guaA; PRK00074 323850004076 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 323850004077 AMP/PPi binding site [chemical binding]; other site 323850004078 candidate oxyanion hole; other site 323850004079 catalytic triad [active] 323850004080 potential glutamine specificity residues [chemical binding]; other site 323850004081 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 323850004082 ATP Binding subdomain [chemical binding]; other site 323850004083 Ligand Binding sites [chemical binding]; other site 323850004084 Dimerization subdomain; other site 323850004085 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 323850004086 nucleoside/Zn binding site; other site 323850004087 dimer interface [polypeptide binding]; other site 323850004088 catalytic motif [active] 323850004089 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 323850004090 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 323850004091 substrate binding pocket [chemical binding]; other site 323850004092 membrane-bound complex binding site; other site 323850004093 hinge residues; other site 323850004094 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 323850004095 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323850004096 catalytic residue [active] 323850004097 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 323850004098 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 323850004099 dimerization interface [polypeptide binding]; other site 323850004100 ATP binding site [chemical binding]; other site 323850004101 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 323850004102 dimerization interface [polypeptide binding]; other site 323850004103 ATP binding site [chemical binding]; other site 323850004104 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 323850004105 putative active site [active] 323850004106 catalytic triad [active] 323850004107 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 323850004108 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 323850004109 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 323850004110 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 323850004111 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 323850004112 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 323850004113 active site 323850004114 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 323850004115 catalytic motif [active] 323850004116 Zn binding site [ion binding]; other site 323850004117 HAMP domain; Region: HAMP; pfam00672 323850004118 dimerization interface [polypeptide binding]; other site 323850004119 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323850004120 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850004121 dimer interface [polypeptide binding]; other site 323850004122 putative CheW interface [polypeptide binding]; other site 323850004123 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323850004124 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323850004125 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323850004126 FlgN protein; Region: FlgN; pfam05130 323850004127 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850004128 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323850004129 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323850004130 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 323850004131 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 323850004132 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 323850004133 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 323850004134 binding surface 323850004135 TPR motif; other site 323850004136 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 323850004137 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 323850004138 NAD(P) binding site [chemical binding]; other site 323850004139 homodimer interface [polypeptide binding]; other site 323850004140 substrate binding site [chemical binding]; other site 323850004141 active site 323850004142 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 323850004143 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 323850004144 inhibitor-cofactor binding pocket; inhibition site 323850004145 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850004146 catalytic residue [active] 323850004147 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323850004148 Methyltransferase domain; Region: Methyltransf_12; pfam08242 323850004149 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323850004150 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 323850004151 S-adenosylmethionine binding site [chemical binding]; other site 323850004152 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 323850004153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323850004154 NAD(P) binding site [chemical binding]; other site 323850004155 active site 323850004156 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 323850004157 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 323850004158 AMP binding site [chemical binding]; other site 323850004159 active site 323850004160 acyl-activating enzyme (AAE) consensus motif; other site 323850004161 CoA binding site [chemical binding]; other site 323850004162 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 323850004163 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 323850004164 classical (c) SDRs; Region: SDR_c; cd05233 323850004165 NAD(P) binding site [chemical binding]; other site 323850004166 active site 323850004167 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 323850004168 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 323850004169 ligand binding site; other site 323850004170 pseudaminic acid synthase; Region: PseI; TIGR03586 323850004171 NeuB family; Region: NeuB; pfam03102 323850004172 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 323850004173 NeuB binding interface [polypeptide binding]; other site 323850004174 putative substrate binding site [chemical binding]; other site 323850004175 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 323850004176 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 323850004177 [2Fe-2S] cluster binding site [ion binding]; other site 323850004178 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 323850004179 alpha subunit interface [polypeptide binding]; other site 323850004180 active site 323850004181 substrate binding site [chemical binding]; other site 323850004182 Fe binding site [ion binding]; other site 323850004183 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 323850004184 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 323850004185 classical (c) SDRs; Region: SDR_c; cd05233 323850004186 NAD(P) binding site [chemical binding]; other site 323850004187 active site 323850004188 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 323850004189 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 323850004190 dimer interface [polypeptide binding]; other site 323850004191 active site 323850004192 CoA binding pocket [chemical binding]; other site 323850004193 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 323850004194 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 323850004195 dimer interface [polypeptide binding]; other site 323850004196 active site 323850004197 CoA binding pocket [chemical binding]; other site 323850004198 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 323850004199 LPP20 lipoprotein; Region: LPP20; cl15824 323850004200 FlgN protein; Region: FlgN; pfam05130 323850004201 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 323850004202 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 323850004203 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 323850004204 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 323850004205 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323850004206 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 323850004207 active site 323850004208 phosphorylation site [posttranslational modification] 323850004209 intermolecular recognition site; other site 323850004210 dimerization interface [polypeptide binding]; other site 323850004211 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 323850004212 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 323850004213 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 323850004214 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12625 323850004215 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 323850004216 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 323850004217 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 323850004218 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 323850004219 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 323850004220 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 323850004221 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 323850004222 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 323850004223 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 323850004224 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 323850004225 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 323850004226 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 323850004227 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 323850004228 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 323850004229 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 323850004230 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 323850004231 Flagellar L-ring protein; Region: FlgH; pfam02107 323850004232 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 323850004233 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 323850004234 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 323850004235 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 323850004236 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 323850004237 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08871 323850004238 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 323850004239 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 323850004240 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 323850004241 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 323850004242 flagellin; Provisional; Region: PRK12802 323850004243 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 323850004244 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 323850004245 flagellin; Provisional; Region: PRK12802 323850004246 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 323850004247 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 323850004248 FlaG protein; Region: FlaG; pfam03646 323850004249 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 323850004250 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 323850004251 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 323850004252 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 323850004253 flagellar protein FliS; Validated; Region: fliS; PRK05685 323850004254 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 323850004255 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 323850004256 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 323850004257 Walker A motif; other site 323850004258 ATP binding site [chemical binding]; other site 323850004259 Walker B motif; other site 323850004260 arginine finger; other site 323850004261 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323850004262 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323850004263 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 323850004264 putative active site [active] 323850004265 heme pocket [chemical binding]; other site 323850004266 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 323850004267 dimer interface [polypeptide binding]; other site 323850004268 phosphorylation site [posttranslational modification] 323850004269 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 323850004270 ATP binding site [chemical binding]; other site 323850004271 Mg2+ binding site [ion binding]; other site 323850004272 G-X-G motif; other site 323850004273 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 323850004274 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 323850004275 active site 323850004276 phosphorylation site [posttranslational modification] 323850004277 intermolecular recognition site; other site 323850004278 dimerization interface [polypeptide binding]; other site 323850004279 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 323850004280 Walker A motif; other site 323850004281 ATP binding site [chemical binding]; other site 323850004282 Walker B motif; other site 323850004283 arginine finger; other site 323850004284 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323850004285 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 323850004286 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 323850004287 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 323850004288 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 323850004289 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 323850004290 MgtE intracellular N domain; Region: MgtE_N; smart00924 323850004291 FliG C-terminal domain; Region: FliG_C; pfam01706 323850004292 flagellar assembly protein H; Validated; Region: fliH; PRK05687 323850004293 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 323850004294 Flagellar assembly protein FliH; Region: FliH; pfam02108 323850004295 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 323850004296 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 323850004297 Walker A motif/ATP binding site; other site 323850004298 Walker B motif; other site 323850004299 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 323850004300 Flagellar FliJ protein; Region: FliJ; pfam02050 323850004301 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 323850004302 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 323850004303 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 323850004304 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 323850004305 flagellar motor switch protein; Validated; Region: fliN; PRK08983 323850004306 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 323850004307 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 323850004308 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 323850004309 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 323850004310 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 323850004311 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 323850004312 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 323850004313 FHIPEP family; Region: FHIPEP; pfam00771 323850004314 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 323850004315 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 323850004316 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 323850004317 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 323850004318 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 323850004319 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 323850004320 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323850004321 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 323850004322 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 323850004323 DNA binding residues [nucleotide binding] 323850004324 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 323850004325 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 323850004326 active site 323850004327 phosphorylation site [posttranslational modification] 323850004328 intermolecular recognition site; other site 323850004329 dimerization interface [polypeptide binding]; other site 323850004330 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 323850004331 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 323850004332 putative binding surface; other site 323850004333 active site 323850004334 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 323850004335 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 323850004336 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 323850004337 ATP binding site [chemical binding]; other site 323850004338 Mg2+ binding site [ion binding]; other site 323850004339 G-X-G motif; other site 323850004340 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 323850004341 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 323850004342 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 323850004343 active site 323850004344 phosphorylation site [posttranslational modification] 323850004345 intermolecular recognition site; other site 323850004346 dimerization interface [polypeptide binding]; other site 323850004347 CheB methylesterase; Region: CheB_methylest; pfam01339 323850004348 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 323850004349 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 323850004350 P-loop; other site 323850004351 Magnesium ion binding site [ion binding]; other site 323850004352 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 323850004353 Magnesium ion binding site [ion binding]; other site 323850004354 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 323850004355 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 323850004356 putative CheA interaction surface; other site 323850004357 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 323850004358 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 323850004359 VacJ like lipoprotein; Region: VacJ; cl01073 323850004360 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 323850004361 Response regulator receiver domain; Region: Response_reg; pfam00072 323850004362 active site 323850004363 phosphorylation site [posttranslational modification] 323850004364 intermolecular recognition site; other site 323850004365 dimerization interface [polypeptide binding]; other site 323850004366 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 323850004367 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 323850004368 putative substrate translocation pore; other site 323850004369 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 323850004370 transcriptional activator RfaH; Region: RfaH; TIGR01955 323850004371 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 323850004372 heterodimer interface [polypeptide binding]; other site 323850004373 homodimer interface [polypeptide binding]; other site 323850004374 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 323850004375 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 323850004376 SLBB domain; Region: SLBB; pfam10531 323850004377 SLBB domain; Region: SLBB; pfam10531 323850004378 SLBB domain; Region: SLBB; pfam10531 323850004379 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 323850004380 SLBB domain; Region: SLBB; pfam10531 323850004381 Chain length determinant protein; Region: Wzz; pfam02706 323850004382 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 323850004383 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 323850004384 NAD binding site [chemical binding]; other site 323850004385 substrate binding site [chemical binding]; other site 323850004386 homodimer interface [polypeptide binding]; other site 323850004387 active site 323850004388 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 323850004389 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 323850004390 substrate binding site; other site 323850004391 tetramer interface; other site 323850004392 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 323850004393 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 323850004394 NADP binding site [chemical binding]; other site 323850004395 active site 323850004396 putative substrate binding site [chemical binding]; other site 323850004397 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 323850004398 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323850004399 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_6; cd04955 323850004400 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 323850004401 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 323850004402 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 323850004403 classical (c) SDRs; Region: SDR_c; cd05233 323850004404 NAD(P) binding site [chemical binding]; other site 323850004405 active site 323850004406 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 323850004407 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 323850004408 dimer interface [polypeptide binding]; other site 323850004409 tetramer interface [polypeptide binding]; other site 323850004410 PYR/PP interface [polypeptide binding]; other site 323850004411 TPP binding site [chemical binding]; other site 323850004412 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 323850004413 TPP-binding site; other site 323850004414 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 323850004415 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323850004416 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 323850004417 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 323850004418 trimer interface [polypeptide binding]; other site 323850004419 active site 323850004420 substrate binding site [chemical binding]; other site 323850004421 CoA binding site [chemical binding]; other site 323850004422 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 323850004423 putative ligand binding site [chemical binding]; other site 323850004424 putative catalytic site [active] 323850004425 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 323850004426 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 323850004427 active site 323850004428 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 323850004429 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 323850004430 Mg++ binding site [ion binding]; other site 323850004431 putative catalytic motif [active] 323850004432 substrate binding site [chemical binding]; other site 323850004433 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 323850004434 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 323850004435 Mg++ binding site [ion binding]; other site 323850004436 putative catalytic motif [active] 323850004437 substrate binding site [chemical binding]; other site 323850004438 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 323850004439 active site 323850004440 tetramer interface; other site 323850004441 putative hydrolase; Validated; Region: PRK09248 323850004442 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 323850004443 active site 323850004444 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 323850004445 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 323850004446 Active Sites [active] 323850004447 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 323850004448 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 323850004449 CysD dimerization site [polypeptide binding]; other site 323850004450 G1 box; other site 323850004451 putative GEF interaction site [polypeptide binding]; other site 323850004452 GTP/Mg2+ binding site [chemical binding]; other site 323850004453 Switch I region; other site 323850004454 G2 box; other site 323850004455 G3 box; other site 323850004456 Switch II region; other site 323850004457 G4 box; other site 323850004458 G5 box; other site 323850004459 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 323850004460 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 323850004461 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 323850004462 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 323850004463 TrkA-C domain; Region: TrkA_C; pfam02080 323850004464 TrkA-C domain; Region: TrkA_C; pfam02080 323850004465 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 323850004466 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 323850004467 AAA domain; Region: AAA_18; pfam13238 323850004468 ligand-binding site [chemical binding]; other site 323850004469 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 323850004470 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 323850004471 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 323850004472 active site 323850004473 fructokinase; Reviewed; Region: PRK09557 323850004474 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 323850004475 nucleotide binding site [chemical binding]; other site 323850004476 Uncharacterized conserved protein [Function unknown]; Region: COG1434 323850004477 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 323850004478 putative active site [active] 323850004479 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 323850004480 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 323850004481 ferredoxin-type protein; Provisional; Region: PRK10194 323850004482 UDP-glucose 4-epimerase; Region: PLN02240 323850004483 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 323850004484 NAD binding site [chemical binding]; other site 323850004485 homodimer interface [polypeptide binding]; other site 323850004486 active site 323850004487 substrate binding site [chemical binding]; other site 323850004488 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 323850004489 active site 323850004490 tetramer interface; other site 323850004491 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 323850004492 cofactor binding site; other site 323850004493 metal binding site [ion binding]; metal-binding site 323850004494 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 323850004495 aromatic arch; other site 323850004496 DCoH dimer interaction site [polypeptide binding]; other site 323850004497 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 323850004498 DCoH tetramer interaction site [polypeptide binding]; other site 323850004499 substrate binding site [chemical binding]; other site 323850004500 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 323850004501 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 323850004502 putative aromatic amino acid binding site; other site 323850004503 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 323850004504 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 323850004505 Walker A motif; other site 323850004506 ATP binding site [chemical binding]; other site 323850004507 Walker B motif; other site 323850004508 arginine finger; other site 323850004509 GIYX(10-11)YIG family of class I homing endonucleases C-terminus (GIY-YIG_Cterm). Homing endonucleases promote the mobility of intron or intein by recognizing and cleaving a homologous allele that lacks the sequence. They catalyze a double-strand break...; Region: GIY-YIG_Cterm; cl11508 323850004510 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 323850004511 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 323850004512 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 323850004513 maleylacetoacetate isomerase; Region: maiA; TIGR01262 323850004514 C-terminal domain interface [polypeptide binding]; other site 323850004515 GSH binding site (G-site) [chemical binding]; other site 323850004516 putative dimer interface [polypeptide binding]; other site 323850004517 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 323850004518 dimer interface [polypeptide binding]; other site 323850004519 N-terminal domain interface [polypeptide binding]; other site 323850004520 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 323850004521 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850004522 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850004523 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 323850004524 dimerization interface [polypeptide binding]; other site 323850004525 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 323850004526 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 323850004527 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 323850004528 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 323850004529 active site 323850004530 phosphorylation site [posttranslational modification] 323850004531 intermolecular recognition site; other site 323850004532 dimerization interface [polypeptide binding]; other site 323850004533 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 323850004534 Walker A motif; other site 323850004535 ATP binding site [chemical binding]; other site 323850004536 Walker B motif; other site 323850004537 arginine finger; other site 323850004538 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 323850004539 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 323850004540 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 323850004541 dimer interface [polypeptide binding]; other site 323850004542 phosphorylation site [posttranslational modification] 323850004543 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 323850004544 ATP binding site [chemical binding]; other site 323850004545 Mg2+ binding site [ion binding]; other site 323850004546 G-X-G motif; other site 323850004547 DctM-like transporters; Region: DctM; pfam06808 323850004548 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 323850004549 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 323850004550 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 323850004551 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 323850004552 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 323850004553 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 323850004554 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 323850004555 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 323850004556 active site 323850004557 HIGH motif; other site 323850004558 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 323850004559 active site 323850004560 KMSKS motif; other site 323850004561 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 323850004562 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323850004563 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 323850004564 Walker A/P-loop; other site 323850004565 ATP binding site [chemical binding]; other site 323850004566 Q-loop/lid; other site 323850004567 ABC transporter signature motif; other site 323850004568 Walker B; other site 323850004569 D-loop; other site 323850004570 H-loop/switch region; other site 323850004571 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 323850004572 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 323850004573 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850004574 AlkA N-terminal domain; Region: AlkA_N; pfam06029 323850004575 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 323850004576 minor groove reading motif; other site 323850004577 helix-hairpin-helix signature motif; other site 323850004578 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 323850004579 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 323850004580 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 323850004581 DNA binding site [nucleotide binding] 323850004582 active site 323850004583 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 323850004584 DEAD-like helicases superfamily; Region: DEXDc; smart00487 323850004585 ATP binding site [chemical binding]; other site 323850004586 Mg++ binding site [ion binding]; other site 323850004587 motif III; other site 323850004588 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 323850004589 nucleotide binding region [chemical binding]; other site 323850004590 ATP-binding site [chemical binding]; other site 323850004591 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 323850004592 active site 323850004593 catalytic residues [active] 323850004594 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 323850004595 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 323850004596 PLD-like domain; Region: PLDc_2; pfam13091 323850004597 putative active site [active] 323850004598 catalytic site [active] 323850004599 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 323850004600 PLD-like domain; Region: PLDc_2; pfam13091 323850004601 putative active site [active] 323850004602 catalytic site [active] 323850004603 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 323850004604 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323850004605 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 323850004606 active site 323850004607 phosphorylation site [posttranslational modification] 323850004608 intermolecular recognition site; other site 323850004609 dimerization interface [polypeptide binding]; other site 323850004610 serine/threonine transporter SstT; Provisional; Region: PRK13628 323850004611 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 323850004612 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 323850004613 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 323850004614 active site 323850004615 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 323850004616 putative active site [active] 323850004617 Zn binding site [ion binding]; other site 323850004618 LysE type translocator; Region: LysE; cl00565 323850004619 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 323850004620 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 323850004621 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 323850004622 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 323850004623 homodimer interface [polypeptide binding]; other site 323850004624 NAD binding pocket [chemical binding]; other site 323850004625 ATP binding pocket [chemical binding]; other site 323850004626 Mg binding site [ion binding]; other site 323850004627 active-site loop [active] 323850004628 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 323850004629 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850004630 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850004631 metal binding site [ion binding]; metal-binding site 323850004632 active site 323850004633 I-site; other site 323850004634 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 323850004635 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 323850004636 putative active site [active] 323850004637 putative NTP binding site [chemical binding]; other site 323850004638 putative nucleic acid binding site [nucleotide binding]; other site 323850004639 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 323850004640 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 323850004641 Sulfatase; Region: Sulfatase; cl17466 323850004642 hypothetical protein; Provisional; Region: PRK13689 323850004643 Nucleoid-associated protein [General function prediction only]; Region: COG3081 323850004644 nucleoid-associated protein NdpA; Validated; Region: PRK00378 323850004645 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 323850004646 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 323850004647 Peptidase family M23; Region: Peptidase_M23; pfam01551 323850004648 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 323850004649 RNA polymerase sigma factor; Provisional; Region: PRK12526 323850004650 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323850004651 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 323850004652 DNA binding residues [nucleotide binding] 323850004653 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 323850004654 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 323850004655 Protein of unknown function (DUF523); Region: DUF523; pfam04463 323850004656 Uncharacterized conserved protein [Function unknown]; Region: COG3272 323850004657 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 323850004658 DNA photolyase; Region: DNA_photolyase; pfam00875 323850004659 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 323850004660 SnoaL-like domain; Region: SnoaL_2; pfam12680 323850004661 short chain dehydrogenase; Provisional; Region: PRK06101 323850004662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323850004663 NAD(P) binding site [chemical binding]; other site 323850004664 active site 323850004665 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 323850004666 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 323850004667 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 323850004668 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 323850004669 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 323850004670 S-adenosylmethionine binding site [chemical binding]; other site 323850004671 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 323850004672 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 323850004673 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 323850004674 FAD binding domain; Region: FAD_binding_4; pfam01565 323850004675 Berberine and berberine like; Region: BBE; pfam08031 323850004676 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 323850004677 putative metal binding site [ion binding]; other site 323850004678 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 323850004679 Ion transport protein; Region: Ion_trans; pfam00520 323850004680 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 323850004681 Ion channel; Region: Ion_trans_2; pfam07885 323850004682 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 323850004683 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 323850004684 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 323850004685 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 323850004686 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 323850004687 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 323850004688 Nitrogen regulatory protein P-II; Region: P-II; smart00938 323850004689 FOG: CBS domain [General function prediction only]; Region: COG0517 323850004690 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_17; cd04630 323850004691 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 323850004692 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 323850004693 C-terminal domain interface [polypeptide binding]; other site 323850004694 GSH binding site (G-site) [chemical binding]; other site 323850004695 dimer interface [polypeptide binding]; other site 323850004696 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 323850004697 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 323850004698 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 323850004699 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 323850004700 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 323850004701 catalytic loop [active] 323850004702 iron binding site [ion binding]; other site 323850004703 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible...; Region: FNR_N-term_Iron_sulfur_binding; cd06194 323850004704 FAD binding pocket [chemical binding]; other site 323850004705 FAD binding motif [chemical binding]; other site 323850004706 phosphate binding motif [ion binding]; other site 323850004707 beta-alpha-beta structure motif; other site 323850004708 NAD binding pocket [chemical binding]; other site 323850004709 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850004710 Coenzyme A binding pocket [chemical binding]; other site 323850004711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 323850004712 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323850004713 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 323850004714 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 323850004715 putative substrate binding pocket [chemical binding]; other site 323850004716 trimer interface [polypeptide binding]; other site 323850004717 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323850004718 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 323850004719 substrate binding pocket [chemical binding]; other site 323850004720 membrane-bound complex binding site; other site 323850004721 hinge residues; other site 323850004722 asparagine synthetase B; Provisional; Region: asnB; PRK09431 323850004723 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 323850004724 active site 323850004725 dimer interface [polypeptide binding]; other site 323850004726 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 323850004727 Ligand Binding Site [chemical binding]; other site 323850004728 Molecular Tunnel; other site 323850004729 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 323850004730 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 323850004731 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 323850004732 PA/protease or protease-like domain interface [polypeptide binding]; other site 323850004733 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 323850004734 metal binding site [ion binding]; metal-binding site 323850004735 UMP phosphatase; Provisional; Region: PRK10444 323850004736 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 323850004737 active site 323850004738 motif I; other site 323850004739 motif II; other site 323850004740 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 323850004741 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 323850004742 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 323850004743 active site 323850004744 substrate binding site [chemical binding]; other site 323850004745 cosubstrate binding site; other site 323850004746 catalytic site [active] 323850004747 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 323850004748 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 323850004749 dimerization interface [polypeptide binding]; other site 323850004750 putative ATP binding site [chemical binding]; other site 323850004751 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323850004752 active site 323850004753 Predicted permease [General function prediction only]; Region: COG2056 323850004754 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 323850004755 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 323850004756 peroxidase; Provisional; Region: PRK15000 323850004757 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 323850004758 dimer interface [polypeptide binding]; other site 323850004759 decamer (pentamer of dimers) interface [polypeptide binding]; other site 323850004760 catalytic triad [active] 323850004761 peroxidatic and resolving cysteines [active] 323850004762 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 323850004763 putative active site [active] 323850004764 putative metal binding residues [ion binding]; other site 323850004765 signature motif; other site 323850004766 putative triphosphate binding site [ion binding]; other site 323850004767 dimer interface [polypeptide binding]; other site 323850004768 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 323850004769 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 323850004770 membrane-bound complex binding site; other site 323850004771 hinge residues; other site 323850004772 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 323850004773 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 323850004774 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 323850004775 dimer interface [polypeptide binding]; other site 323850004776 catalytic site [active] 323850004777 putative active site [active] 323850004778 putative substrate binding site [chemical binding]; other site 323850004779 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 323850004780 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323850004781 ligand binding site [chemical binding]; other site 323850004782 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 323850004783 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323850004784 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 323850004785 active site 323850004786 TolQ protein; Region: tolQ; TIGR02796 323850004787 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 323850004788 TolR protein; Region: tolR; TIGR02801 323850004789 TolA protein; Region: tolA_full; TIGR02794 323850004790 TolA C-terminal; Region: TolA; pfam06519 323850004791 translocation protein TolB; Provisional; Region: tolB; PRK04792 323850004792 TolB amino-terminal domain; Region: TolB_N; pfam04052 323850004793 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323850004794 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323850004795 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323850004796 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323850004797 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 323850004798 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323850004799 ligand binding site [chemical binding]; other site 323850004800 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 323850004801 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 323850004802 binding surface 323850004803 TPR motif; other site 323850004804 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 323850004805 GSH binding site [chemical binding]; other site 323850004806 catalytic residues [active] 323850004807 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 323850004808 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 323850004809 ATP binding site [chemical binding]; other site 323850004810 putative Mg++ binding site [ion binding]; other site 323850004811 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 323850004812 nucleotide binding region [chemical binding]; other site 323850004813 ATP-binding site [chemical binding]; other site 323850004814 Double zinc ribbon; Region: DZR; pfam12773 323850004815 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 323850004816 acetyl-CoA synthetase; Provisional; Region: PRK00174 323850004817 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 323850004818 active site 323850004819 CoA binding site [chemical binding]; other site 323850004820 acyl-activating enzyme (AAE) consensus motif; other site 323850004821 AMP binding site [chemical binding]; other site 323850004822 acetate binding site [chemical binding]; other site 323850004823 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 323850004824 Na binding site [ion binding]; other site 323850004825 PAS domain; Region: PAS; smart00091 323850004826 PAS fold; Region: PAS_7; pfam12860 323850004827 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323850004828 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 323850004829 dimer interface [polypeptide binding]; other site 323850004830 phosphorylation site [posttranslational modification] 323850004831 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 323850004832 ATP binding site [chemical binding]; other site 323850004833 Mg2+ binding site [ion binding]; other site 323850004834 G-X-G motif; other site 323850004835 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323850004836 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 323850004837 active site 323850004838 phosphorylation site [posttranslational modification] 323850004839 intermolecular recognition site; other site 323850004840 dimerization interface [polypeptide binding]; other site 323850004841 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 323850004842 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 323850004843 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 323850004844 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 323850004845 trimer interface [polypeptide binding]; other site 323850004846 active site 323850004847 substrate binding site [chemical binding]; other site 323850004848 CoA binding site [chemical binding]; other site 323850004849 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 323850004850 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 323850004851 Protein of unknown function (DUF465); Region: DUF465; pfam04325 323850004852 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850004853 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850004854 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 323850004855 putative effector binding pocket; other site 323850004856 putative dimerization interface [polypeptide binding]; other site 323850004857 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 323850004858 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 323850004859 substrate binding site [chemical binding]; other site 323850004860 catalytic Zn binding site [ion binding]; other site 323850004861 NAD binding site [chemical binding]; other site 323850004862 structural Zn binding site [ion binding]; other site 323850004863 dimer interface [polypeptide binding]; other site 323850004864 S-formylglutathione hydrolase; Region: PLN02442 323850004865 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 323850004866 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 323850004867 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 323850004868 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 323850004869 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323850004870 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850004871 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323850004872 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323850004873 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 323850004874 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 323850004875 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 323850004876 active site 323850004877 phosphorylation site [posttranslational modification] 323850004878 intermolecular recognition site; other site 323850004879 dimerization interface [polypeptide binding]; other site 323850004880 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 323850004881 DNA binding residues [nucleotide binding] 323850004882 dimerization interface [polypeptide binding]; other site 323850004883 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 323850004884 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 323850004885 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 323850004886 PEP synthetase regulatory protein; Provisional; Region: PRK05339 323850004887 phosphoenolpyruvate synthase; Validated; Region: PRK06464 323850004888 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 323850004889 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 323850004890 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 323850004891 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 323850004892 FAD binding domain; Region: FAD_binding_4; pfam01565 323850004893 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 323850004894 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 323850004895 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 323850004896 MarR family; Region: MarR_2; pfam12802 323850004897 MarR family; Region: MarR_2; cl17246 323850004898 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 323850004899 dimer interface [polypeptide binding]; other site 323850004900 putative inhibitory loop; other site 323850004901 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 323850004902 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 323850004903 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 323850004904 NAD binding site [chemical binding]; other site 323850004905 Phe binding site; other site 323850004906 Cupin superfamily protein; Region: Cupin_4; pfam08007 323850004907 Cupin-like domain; Region: Cupin_8; pfam13621 323850004908 adenylosuccinate lyase; Provisional; Region: PRK09285 323850004909 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 323850004910 tetramer interface [polypeptide binding]; other site 323850004911 active site 323850004912 putative lysogenization regulator; Reviewed; Region: PRK00218 323850004913 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 323850004914 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 323850004915 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 323850004916 nudix motif; other site 323850004917 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 323850004918 pseudouridine synthase; Region: TIGR00093 323850004919 probable active site [active] 323850004920 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 323850004921 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 323850004922 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 323850004923 DNA-binding site [nucleotide binding]; DNA binding site 323850004924 RNA-binding motif; other site 323850004925 Uncharacterized conserved protein [Function unknown]; Region: COG2127 323850004926 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 323850004927 Clp amino terminal domain; Region: Clp_N; pfam02861 323850004928 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 323850004929 Walker A motif; other site 323850004930 ATP binding site [chemical binding]; other site 323850004931 Walker B motif; other site 323850004932 arginine finger; other site 323850004933 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 323850004934 Walker A motif; other site 323850004935 ATP binding site [chemical binding]; other site 323850004936 Walker B motif; other site 323850004937 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 323850004938 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 323850004939 rRNA binding site [nucleotide binding]; other site 323850004940 predicted 30S ribosome binding site; other site 323850004941 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 323850004942 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 323850004943 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 323850004944 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 323850004945 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 323850004946 Uncharacterized conserved protein [Function unknown]; Region: COG0327 323850004947 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 323850004948 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 323850004949 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 323850004950 active site 323850004951 HIGH motif; other site 323850004952 KMSKS motif; other site 323850004953 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 323850004954 tRNA binding surface [nucleotide binding]; other site 323850004955 anticodon binding site; other site 323850004956 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 323850004957 dimer interface [polypeptide binding]; other site 323850004958 putative tRNA-binding site [nucleotide binding]; other site 323850004959 antiporter inner membrane protein; Provisional; Region: PRK11670 323850004960 Domain of unknown function DUF59; Region: DUF59; cl00941 323850004961 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 323850004962 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 323850004963 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 323850004964 ATP-binding site [chemical binding]; other site 323850004965 Sugar specificity; other site 323850004966 Pyrimidine base specificity; other site 323850004967 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 323850004968 trimer interface [polypeptide binding]; other site 323850004969 active site 323850004970 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 323850004971 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 323850004972 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850004973 catalytic residue [active] 323850004974 YceG-like family; Region: YceG; pfam02618 323850004975 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 323850004976 dimerization interface [polypeptide binding]; other site 323850004977 thymidylate kinase; Validated; Region: tmk; PRK00698 323850004978 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 323850004979 TMP-binding site; other site 323850004980 ATP-binding site [chemical binding]; other site 323850004981 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 323850004982 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 323850004983 PilZ domain; Region: PilZ; cl01260 323850004984 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 323850004985 active site 323850004986 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 323850004987 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 323850004988 S-adenosylmethionine binding site [chemical binding]; other site 323850004989 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 323850004990 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 323850004991 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 323850004992 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 323850004993 DNA ligase; Provisional; Region: PRK09125 323850004994 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 323850004995 DNA binding site [nucleotide binding] 323850004996 active site 323850004997 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 323850004998 DNA binding site [nucleotide binding] 323850004999 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 323850005000 Low molecular weight phosphatase family; Region: LMWPc; cd00115 323850005001 active site 323850005002 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 323850005003 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 323850005004 GTP/Mg2+ binding site [chemical binding]; other site 323850005005 G4 box; other site 323850005006 G5 box; other site 323850005007 G1 box; other site 323850005008 Switch I region; other site 323850005009 G2 box; other site 323850005010 G3 box; other site 323850005011 Switch II region; other site 323850005012 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 323850005013 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 323850005014 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 323850005015 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 323850005016 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 323850005017 methionine sulfoxide reductase A; Provisional; Region: PRK14054 323850005018 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 323850005019 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 323850005020 Sulfate transporter family; Region: Sulfate_transp; pfam00916 323850005021 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 323850005022 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 323850005023 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 323850005024 homodimer interface [polypeptide binding]; other site 323850005025 oligonucleotide binding site [chemical binding]; other site 323850005026 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 323850005027 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 323850005028 RNA binding surface [nucleotide binding]; other site 323850005029 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 323850005030 active site 323850005031 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 323850005032 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 323850005033 motif II; other site 323850005034 PAS domain; Region: PAS_9; pfam13426 323850005035 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850005036 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850005037 metal binding site [ion binding]; metal-binding site 323850005038 active site 323850005039 I-site; other site 323850005040 Maf-like protein; Region: Maf; pfam02545 323850005041 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 323850005042 active site 323850005043 dimer interface [polypeptide binding]; other site 323850005044 hypothetical protein; Provisional; Region: PRK11193 323850005045 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 323850005046 putative phosphate acyltransferase; Provisional; Region: PRK05331 323850005047 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 323850005048 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 323850005049 dimer interface [polypeptide binding]; other site 323850005050 active site 323850005051 CoA binding pocket [chemical binding]; other site 323850005052 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 323850005053 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 323850005054 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 323850005055 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 323850005056 NAD(P) binding site [chemical binding]; other site 323850005057 homotetramer interface [polypeptide binding]; other site 323850005058 homodimer interface [polypeptide binding]; other site 323850005059 active site 323850005060 acyl carrier protein; Provisional; Region: acpP; PRK00982 323850005061 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 323850005062 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 323850005063 dimer interface [polypeptide binding]; other site 323850005064 active site 323850005065 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 323850005066 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 323850005067 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 323850005068 putative N- and C-terminal domain interface [polypeptide binding]; other site 323850005069 putative active site [active] 323850005070 MgATP binding site [chemical binding]; other site 323850005071 catalytic site [active] 323850005072 metal binding site [ion binding]; metal-binding site 323850005073 putative carbohydrate binding site [chemical binding]; other site 323850005074 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 323850005075 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 323850005076 cytidine deaminase; Provisional; Region: PRK09027 323850005077 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 323850005078 active site 323850005079 catalytic motif [active] 323850005080 Zn binding site [ion binding]; other site 323850005081 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 323850005082 exonuclease I; Provisional; Region: sbcB; PRK11779 323850005083 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 323850005084 active site 323850005085 catalytic site [active] 323850005086 substrate binding site [chemical binding]; other site 323850005087 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 323850005088 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 323850005089 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 323850005090 S-adenosylmethionine binding site [chemical binding]; other site 323850005091 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 323850005092 DNA-binding site [nucleotide binding]; DNA binding site 323850005093 RNA-binding motif; other site 323850005094 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323850005095 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 323850005096 Walker A/P-loop; other site 323850005097 ATP binding site [chemical binding]; other site 323850005098 Q-loop/lid; other site 323850005099 ABC transporter signature motif; other site 323850005100 Walker B; other site 323850005101 D-loop; other site 323850005102 H-loop/switch region; other site 323850005103 hypothetical protein; Provisional; Region: PRK11239 323850005104 Protein of unknown function, DUF480; Region: DUF480; pfam04337 323850005105 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 323850005106 S1 domain; Region: S1_2; pfam13509 323850005107 S1 domain; Region: S1_2; pfam13509 323850005108 arginine decarboxylase; Provisional; Region: PRK05354 323850005109 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 323850005110 dimer interface [polypeptide binding]; other site 323850005111 active site 323850005112 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323850005113 catalytic residues [active] 323850005114 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 323850005115 Adenosylmethionine decarboxylase; Region: SAM_decarbox; cl03253 323850005116 agmatinase; Region: agmatinase; TIGR01230 323850005117 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 323850005118 oligomer interface [polypeptide binding]; other site 323850005119 putative active site [active] 323850005120 Mn binding site [ion binding]; other site 323850005121 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 323850005122 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 323850005123 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 323850005124 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 323850005125 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850005126 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 323850005127 substrate binding site [chemical binding]; other site 323850005128 dimerization interface [polypeptide binding]; other site 323850005129 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 323850005130 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 323850005131 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 323850005132 beta-hexosaminidase; Provisional; Region: PRK05337 323850005133 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 323850005134 hypothetical protein; Provisional; Region: PRK04940 323850005135 acylphosphatase; Provisional; Region: PRK14429 323850005136 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 323850005137 transcription-repair coupling factor; Provisional; Region: PRK10689 323850005138 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 323850005139 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 323850005140 ATP binding site [chemical binding]; other site 323850005141 putative Mg++ binding site [ion binding]; other site 323850005142 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 323850005143 nucleotide binding region [chemical binding]; other site 323850005144 ATP-binding site [chemical binding]; other site 323850005145 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 323850005146 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 323850005147 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323850005148 FtsX-like permease family; Region: FtsX; pfam02687 323850005149 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 323850005150 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 323850005151 Walker A/P-loop; other site 323850005152 ATP binding site [chemical binding]; other site 323850005153 Q-loop/lid; other site 323850005154 ABC transporter signature motif; other site 323850005155 Walker B; other site 323850005156 D-loop; other site 323850005157 H-loop/switch region; other site 323850005158 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 323850005159 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323850005160 FtsX-like permease family; Region: FtsX; pfam02687 323850005161 CHASE domain; Region: CHASE; cl01369 323850005162 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850005163 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850005164 metal binding site [ion binding]; metal-binding site 323850005165 active site 323850005166 I-site; other site 323850005167 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 323850005168 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 323850005169 ComEC family competence protein; Provisional; Region: PRK11539 323850005170 Competence protein; Region: Competence; pfam03772 323850005171 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 323850005172 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 323850005173 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323850005174 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323850005175 Walker A/P-loop; other site 323850005176 ATP binding site [chemical binding]; other site 323850005177 Q-loop/lid; other site 323850005178 ABC transporter signature motif; other site 323850005179 Walker B; other site 323850005180 D-loop; other site 323850005181 H-loop/switch region; other site 323850005182 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 323850005183 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 323850005184 Uncharacterized conserved protein [Function unknown]; Region: COG2835 323850005185 Gametolysin peptidase M11; Region: Peptidase_M11; pfam05548 323850005186 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 323850005187 Thioredoxin; Region: Thioredoxin_4; pfam13462 323850005188 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 323850005189 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 323850005190 Walker A motif; other site 323850005191 ATP binding site [chemical binding]; other site 323850005192 Walker B motif; other site 323850005193 arginine finger; other site 323850005194 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323850005195 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 323850005196 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323850005197 Protein export membrane protein; Region: SecD_SecF; cl14618 323850005198 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323850005199 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323850005200 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323850005201 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850005202 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 323850005203 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 323850005204 dimer interface [polypeptide binding]; other site 323850005205 active site 323850005206 citrylCoA binding site [chemical binding]; other site 323850005207 NADH binding [chemical binding]; other site 323850005208 cationic pore residues; other site 323850005209 oxalacetate/citrate binding site [chemical binding]; other site 323850005210 coenzyme A binding site [chemical binding]; other site 323850005211 catalytic triad [active] 323850005212 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 323850005213 Iron-sulfur protein interface; other site 323850005214 proximal quinone binding site [chemical binding]; other site 323850005215 SdhD (CybS) interface [polypeptide binding]; other site 323850005216 proximal heme binding site [chemical binding]; other site 323850005217 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 323850005218 SdhC subunit interface [polypeptide binding]; other site 323850005219 proximal heme binding site [chemical binding]; other site 323850005220 cardiolipin binding site; other site 323850005221 Iron-sulfur protein interface; other site 323850005222 proximal quinone binding site [chemical binding]; other site 323850005223 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 323850005224 L-aspartate oxidase; Provisional; Region: PRK06175 323850005225 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 323850005226 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 323850005227 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 323850005228 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 323850005229 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 323850005230 TPP-binding site [chemical binding]; other site 323850005231 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 323850005232 dimer interface [polypeptide binding]; other site 323850005233 PYR/PP interface [polypeptide binding]; other site 323850005234 TPP binding site [chemical binding]; other site 323850005235 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 323850005236 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 323850005237 E3 interaction surface; other site 323850005238 lipoyl attachment site [posttranslational modification]; other site 323850005239 e3 binding domain; Region: E3_binding; pfam02817 323850005240 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 323850005241 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 323850005242 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 323850005243 CoA-ligase; Region: Ligase_CoA; pfam00549 323850005244 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 323850005245 CoA binding domain; Region: CoA_binding; pfam02629 323850005246 CoA-ligase; Region: Ligase_CoA; pfam00549 323850005247 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 323850005248 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 323850005249 active site 323850005250 FMN binding site [chemical binding]; other site 323850005251 substrate binding site [chemical binding]; other site 323850005252 3Fe-4S cluster binding site [ion binding]; other site 323850005253 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 323850005254 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 323850005255 ferric uptake regulator; Provisional; Region: fur; PRK09462 323850005256 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 323850005257 metal binding site 2 [ion binding]; metal-binding site 323850005258 putative DNA binding helix; other site 323850005259 metal binding site 1 [ion binding]; metal-binding site 323850005260 dimer interface [polypeptide binding]; other site 323850005261 structural Zn2+ binding site [ion binding]; other site 323850005262 NAD-dependent deacetylase; Provisional; Region: PRK00481 323850005263 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 323850005264 NAD+ binding site [chemical binding]; other site 323850005265 substrate binding site [chemical binding]; other site 323850005266 Zn binding site [ion binding]; other site 323850005267 AAA domain; Region: AAA_33; pfam13671 323850005268 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 323850005269 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 323850005270 active site pocket [active] 323850005271 oxyanion hole [active] 323850005272 catalytic triad [active] 323850005273 active site nucleophile [active] 323850005274 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 323850005275 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 323850005276 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 323850005277 dimer interface [polypeptide binding]; other site 323850005278 active site 323850005279 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 323850005280 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 323850005281 tetrameric interface [polypeptide binding]; other site 323850005282 NAD binding site [chemical binding]; other site 323850005283 catalytic residues [active] 323850005284 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 323850005285 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 323850005286 substrate binding pocket [chemical binding]; other site 323850005287 FAD binding site [chemical binding]; other site 323850005288 catalytic base [active] 323850005289 enoyl-CoA hydratase; Provisional; Region: PRK09076 323850005290 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 323850005291 substrate binding site [chemical binding]; other site 323850005292 oxyanion hole (OAH) forming residues; other site 323850005293 trimer interface [polypeptide binding]; other site 323850005294 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 323850005295 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 323850005296 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 323850005297 substrate binding site [chemical binding]; other site 323850005298 oxyanion hole (OAH) forming residues; other site 323850005299 trimer interface [polypeptide binding]; other site 323850005300 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 323850005301 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 323850005302 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 323850005303 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 323850005304 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323850005305 NAD(P) binding site [chemical binding]; other site 323850005306 active site 323850005307 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 323850005308 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323850005309 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 323850005310 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323850005311 Walker A/P-loop; other site 323850005312 ATP binding site [chemical binding]; other site 323850005313 Q-loop/lid; other site 323850005314 ABC transporter signature motif; other site 323850005315 Walker B; other site 323850005316 D-loop; other site 323850005317 H-loop/switch region; other site 323850005318 ABC transporter; Region: ABC_tran_2; pfam12848 323850005319 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323850005320 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 323850005321 interface (dimer of trimers) [polypeptide binding]; other site 323850005322 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 323850005323 Substrate-binding/catalytic site; other site 323850005324 Zn-binding sites [ion binding]; other site 323850005325 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323850005326 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323850005327 HPP family; Region: HPP; pfam04982 323850005328 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 323850005329 PAS domain; Region: PAS_9; pfam13426 323850005330 putative active site [active] 323850005331 heme pocket [chemical binding]; other site 323850005332 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850005333 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850005334 metal binding site [ion binding]; metal-binding site 323850005335 active site 323850005336 I-site; other site 323850005337 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 323850005338 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 323850005339 RNA/DNA hybrid binding site [nucleotide binding]; other site 323850005340 active site 323850005341 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 323850005342 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 323850005343 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 323850005344 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 323850005345 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 323850005346 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 323850005347 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 323850005348 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 323850005349 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 323850005350 N-terminal plug; other site 323850005351 ligand-binding site [chemical binding]; other site 323850005352 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 323850005353 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 323850005354 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 323850005355 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 323850005356 EamA-like transporter family; Region: EamA; pfam00892 323850005357 EamA-like transporter family; Region: EamA; pfam00892 323850005358 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 323850005359 ACT domain; Region: ACT_6; pfam13740 323850005360 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 323850005361 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 323850005362 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323850005363 conserved gate region; other site 323850005364 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323850005365 dimer interface [polypeptide binding]; other site 323850005366 conserved gate region; other site 323850005367 putative PBP binding loops; other site 323850005368 ABC-ATPase subunit interface; other site 323850005369 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 323850005370 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 323850005371 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323850005372 dimer interface [polypeptide binding]; other site 323850005373 conserved gate region; other site 323850005374 putative PBP binding loops; other site 323850005375 ABC-ATPase subunit interface; other site 323850005376 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 323850005377 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 323850005378 Walker A/P-loop; other site 323850005379 ATP binding site [chemical binding]; other site 323850005380 Q-loop/lid; other site 323850005381 ABC transporter signature motif; other site 323850005382 Walker B; other site 323850005383 D-loop; other site 323850005384 H-loop/switch region; other site 323850005385 transcriptional regulator PhoU; Provisional; Region: PRK11115 323850005386 PhoU domain; Region: PhoU; pfam01895 323850005387 PhoU domain; Region: PhoU; pfam01895 323850005388 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 323850005389 binding surface 323850005390 TPR motif; other site 323850005391 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 323850005392 Uncharacterized conserved protein [Function unknown]; Region: COG3791 323850005393 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 323850005394 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 323850005395 active site 323850005396 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 323850005397 Methyltransferase domain; Region: Methyltransf_32; pfam13679 323850005398 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 323850005399 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 323850005400 dimer interface [polypeptide binding]; other site 323850005401 active site 323850005402 CoA binding pocket [chemical binding]; other site 323850005403 haloalkane dehalogenase; Provisional; Region: PRK03592 323850005404 peptide synthase; Provisional; Region: PRK09274 323850005405 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 323850005406 acyl-activating enzyme (AAE) consensus motif; other site 323850005407 putative AMP binding site [chemical binding]; other site 323850005408 putative active site [active] 323850005409 putative CoA binding site [chemical binding]; other site 323850005410 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323850005411 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 323850005412 NAD(P) binding site [chemical binding]; other site 323850005413 active site 323850005414 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 323850005415 heme-binding site [chemical binding]; other site 323850005416 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 323850005417 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 323850005418 inhibitor-cofactor binding pocket; inhibition site 323850005419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850005420 catalytic residue [active] 323850005421 biotin synthase; Provisional; Region: PRK15108 323850005422 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 323850005423 FeS/SAM binding site; other site 323850005424 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 323850005425 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 323850005426 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 323850005427 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323850005428 catalytic residue [active] 323850005429 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 323850005430 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 323850005431 S-adenosylmethionine binding site [chemical binding]; other site 323850005432 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 323850005433 AAA domain; Region: AAA_26; pfam13500 323850005434 heat shock protein HtpX; Provisional; Region: PRK05457 323850005435 Curlin associated repeat; Region: Curlin_rpt; pfam07012 323850005436 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 323850005437 Curlin associated repeat; Region: Curlin_rpt; pfam07012 323850005438 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 323850005439 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 323850005440 DNA binding residues [nucleotide binding] 323850005441 dimerization interface [polypeptide binding]; other site 323850005442 Curli assembly protein CsgE; Region: CsgE; pfam10627 323850005443 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 323850005444 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 323850005445 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 323850005446 nucleotide binding site/active site [active] 323850005447 HIT family signature motif; other site 323850005448 catalytic residue [active] 323850005449 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 323850005450 CoenzymeA binding site [chemical binding]; other site 323850005451 subunit interaction site [polypeptide binding]; other site 323850005452 PHB binding site; other site 323850005453 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 323850005454 CoenzymeA binding site [chemical binding]; other site 323850005455 subunit interaction site [polypeptide binding]; other site 323850005456 PHB binding site; other site 323850005457 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 323850005458 putative dimer interface [polypeptide binding]; other site 323850005459 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 323850005460 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 323850005461 N-terminal plug; other site 323850005462 ligand-binding site [chemical binding]; other site 323850005463 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 323850005464 Phosphotransferase enzyme family; Region: APH; pfam01636 323850005465 active site 323850005466 ATP binding site [chemical binding]; other site 323850005467 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 323850005468 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 323850005469 substrate binding site [chemical binding]; other site 323850005470 DoxX; Region: DoxX; pfam07681 323850005471 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 323850005472 putative FMN binding site [chemical binding]; other site 323850005473 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 323850005474 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 323850005475 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 323850005476 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 323850005477 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 323850005478 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 323850005479 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 323850005480 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 323850005481 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850005482 Coenzyme A binding pocket [chemical binding]; other site 323850005483 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 323850005484 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 323850005485 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 323850005486 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 323850005487 dimerization interface [polypeptide binding]; other site 323850005488 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 323850005489 ATP binding site [chemical binding]; other site 323850005490 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 323850005491 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 323850005492 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 323850005493 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 323850005494 G1 box; other site 323850005495 GTP/Mg2+ binding site [chemical binding]; other site 323850005496 G2 box; other site 323850005497 Switch I region; other site 323850005498 G3 box; other site 323850005499 Switch II region; other site 323850005500 G4 box; other site 323850005501 G5 box; other site 323850005502 Acylphosphatase; Region: Acylphosphatase; pfam00708 323850005503 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 323850005504 HypF finger; Region: zf-HYPF; pfam07503 323850005505 HypF finger; Region: zf-HYPF; pfam07503 323850005506 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 323850005507 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 323850005508 putative substrate-binding site; other site 323850005509 nickel binding site [ion binding]; other site 323850005510 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 323850005511 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 323850005512 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 323850005513 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 323850005514 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 323850005515 FOG: CBS domain [General function prediction only]; Region: COG0517 323850005516 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_16; cd04629 323850005517 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 323850005518 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 323850005519 ATP binding site [chemical binding]; other site 323850005520 putative Mg++ binding site [ion binding]; other site 323850005521 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 323850005522 nucleotide binding region [chemical binding]; other site 323850005523 ATP-binding site [chemical binding]; other site 323850005524 Helicase associated domain (HA2); Region: HA2; pfam04408 323850005525 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 323850005526 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 323850005527 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 323850005528 NapD protein; Region: NapD; pfam03927 323850005529 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 323850005530 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 323850005531 [4Fe-4S] binding site [ion binding]; other site 323850005532 molybdopterin cofactor binding site; other site 323850005533 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 323850005534 molybdopterin cofactor binding site; other site 323850005535 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 323850005536 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 323850005537 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 323850005538 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 323850005539 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850005540 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 323850005541 substrate binding pocket [chemical binding]; other site 323850005542 dimerization interface [polypeptide binding]; other site 323850005543 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 323850005544 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 323850005545 putative valine binding site [chemical binding]; other site 323850005546 dimer interface [polypeptide binding]; other site 323850005547 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 323850005548 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08979 323850005549 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 323850005550 PYR/PP interface [polypeptide binding]; other site 323850005551 dimer interface [polypeptide binding]; other site 323850005552 TPP binding site [chemical binding]; other site 323850005553 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 323850005554 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 323850005555 TPP-binding site [chemical binding]; other site 323850005556 dimer interface [polypeptide binding]; other site 323850005557 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 323850005558 Major Facilitator Superfamily; Region: MFS_1; pfam07690 323850005559 putative substrate translocation pore; other site 323850005560 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 323850005561 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 323850005562 putative active site [active] 323850005563 putative dimer interface [polypeptide binding]; other site 323850005564 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 323850005565 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega 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_Omega_like; cd03060 323850005566 glutaredoxin 2; Provisional; Region: PRK10387 323850005567 putative GSH binding site (G-site) [chemical binding]; other site 323850005568 active site cysteine [active] 323850005569 putative C-terminal domain interface [polypeptide binding]; other site 323850005570 putative dimer interface [polypeptide binding]; other site 323850005571 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 323850005572 putative N-terminal domain interface [polypeptide binding]; other site 323850005573 putative dimer interface [polypeptide binding]; other site 323850005574 putative substrate binding pocket (H-site) [chemical binding]; other site 323850005575 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 323850005576 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 323850005577 active site residue [active] 323850005578 transcriptional regulator SlyA; Provisional; Region: PRK03573 323850005579 MarR family; Region: MarR_2; pfam12802 323850005580 multidrug resistance protein MdtN; Provisional; Region: PRK10476 323850005581 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323850005582 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850005583 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 323850005584 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 323850005585 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 323850005586 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 323850005587 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 323850005588 active site residues [active] 323850005589 dimer interface [polypeptide binding]; other site 323850005590 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 323850005591 putative chaperone; Provisional; Region: PRK11678 323850005592 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 323850005593 nucleotide binding site [chemical binding]; other site 323850005594 putative NEF/HSP70 interaction site [polypeptide binding]; other site 323850005595 SBD interface [polypeptide binding]; other site 323850005596 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 323850005597 CreA protein; Region: CreA; pfam05981 323850005598 cystathionine beta-lyase; Provisional; Region: PRK09028 323850005599 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 323850005600 homodimer interface [polypeptide binding]; other site 323850005601 substrate-cofactor binding pocket; other site 323850005602 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850005603 catalytic residue [active] 323850005604 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 323850005605 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 323850005606 putative ligand binding site [chemical binding]; other site 323850005607 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 323850005608 dimer interface [polypeptide binding]; other site 323850005609 phosphorylation site [posttranslational modification] 323850005610 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 323850005611 ATP binding site [chemical binding]; other site 323850005612 Mg2+ binding site [ion binding]; other site 323850005613 G-X-G motif; other site 323850005614 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 323850005615 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 323850005616 active site 323850005617 phosphorylation site [posttranslational modification] 323850005618 intermolecular recognition site; other site 323850005619 dimerization interface [polypeptide binding]; other site 323850005620 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 323850005621 DNA binding site [nucleotide binding] 323850005622 proteobacterial sortase system OmpA family protein; Region: pdsO; TIGR03789 323850005623 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323850005624 ligand binding site [chemical binding]; other site 323850005625 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 323850005626 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 323850005627 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 323850005628 metal ion-dependent adhesion site (MIDAS); other site 323850005629 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 323850005630 active site 323850005631 catalytic site [active] 323850005632 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850005633 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850005634 metal binding site [ion binding]; metal-binding site 323850005635 active site 323850005636 I-site; other site 323850005637 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 323850005638 mce related protein; Region: MCE; pfam02470 323850005639 mce related protein; Region: MCE; pfam02470 323850005640 mce related protein; Region: MCE; pfam02470 323850005641 mce related protein; Region: MCE; pfam02470 323850005642 mce related protein; Region: MCE; pfam02470 323850005643 mce related protein; Region: MCE; pfam02470 323850005644 Paraquat-inducible protein A; Region: PqiA; pfam04403 323850005645 Paraquat-inducible protein A; Region: PqiA; pfam04403 323850005646 YebG protein; Region: YebG; pfam07130 323850005647 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 323850005648 GAF domain; Region: GAF_2; pfam13185 323850005649 ProP expression regulator; Provisional; Region: PRK04950 323850005650 ProQ/FINO family; Region: ProQ; smart00945 323850005651 carboxy-terminal protease; Provisional; Region: PRK11186 323850005652 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 323850005653 protein binding site [polypeptide binding]; other site 323850005654 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 323850005655 Catalytic dyad [active] 323850005656 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 323850005657 aminopeptidase N; Provisional; Region: pepN; PRK14015 323850005658 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 323850005659 active site 323850005660 Zn binding site [ion binding]; other site 323850005661 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 323850005662 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 323850005663 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 323850005664 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 323850005665 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; cl10030 323850005666 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 323850005667 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 323850005668 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 323850005669 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 323850005670 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 323850005671 quinone interaction residues [chemical binding]; other site 323850005672 active site 323850005673 catalytic residues [active] 323850005674 FMN binding site [chemical binding]; other site 323850005675 substrate binding site [chemical binding]; other site 323850005676 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 323850005677 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 323850005678 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 323850005679 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 323850005680 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 323850005681 S-adenosylmethionine binding site [chemical binding]; other site 323850005682 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 323850005683 ABC transporter ATPase component; Reviewed; Region: PRK11147 323850005684 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323850005685 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323850005686 Walker A/P-loop; other site 323850005687 ATP binding site [chemical binding]; other site 323850005688 ABC transporter signature motif; other site 323850005689 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323850005690 Walker B; other site 323850005691 D-loop; other site 323850005692 ABC transporter; Region: ABC_tran_2; pfam12848 323850005693 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323850005694 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 323850005695 ribosome modulation factor; Provisional; Region: PRK14563 323850005696 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 323850005697 active site 1 [active] 323850005698 dimer interface [polypeptide binding]; other site 323850005699 active site 2 [active] 323850005700 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 323850005701 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 323850005702 Transcriptional regulators [Transcription]; Region: GntR; COG1802 323850005703 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 323850005704 DNA-binding site [nucleotide binding]; DNA binding site 323850005705 FCD domain; Region: FCD; pfam07729 323850005706 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 323850005707 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 323850005708 tetramer interface [polypeptide binding]; other site 323850005709 active site 323850005710 Mg2+/Mn2+ binding site [ion binding]; other site 323850005711 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 323850005712 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 323850005713 dimer interface [polypeptide binding]; other site 323850005714 active site 323850005715 citrylCoA binding site [chemical binding]; other site 323850005716 oxalacetate/citrate binding site [chemical binding]; other site 323850005717 coenzyme A binding site [chemical binding]; other site 323850005718 catalytic triad [active] 323850005719 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 323850005720 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 323850005721 substrate binding site [chemical binding]; other site 323850005722 ligand binding site [chemical binding]; other site 323850005723 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 323850005724 substrate binding site [chemical binding]; other site 323850005725 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 323850005726 response regulator; Provisional; Region: PRK09483 323850005727 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 323850005728 active site 323850005729 phosphorylation site [posttranslational modification] 323850005730 intermolecular recognition site; other site 323850005731 dimerization interface [polypeptide binding]; other site 323850005732 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 323850005733 DNA binding residues [nucleotide binding] 323850005734 dimerization interface [polypeptide binding]; other site 323850005735 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 323850005736 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 323850005737 GIY-YIG motif/motif A; other site 323850005738 active site 323850005739 catalytic site [active] 323850005740 putative DNA binding site [nucleotide binding]; other site 323850005741 metal binding site [ion binding]; metal-binding site 323850005742 UvrB/uvrC motif; Region: UVR; pfam02151 323850005743 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 323850005744 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 323850005745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 323850005746 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 323850005747 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 323850005748 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 323850005749 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 323850005750 Peptidase M15; Region: Peptidase_M15_3; cl01194 323850005751 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 323850005752 5S rRNA interface [nucleotide binding]; other site 323850005753 CTC domain interface [polypeptide binding]; other site 323850005754 L16 interface [polypeptide binding]; other site 323850005755 SpoVR family protein; Provisional; Region: PRK11767 323850005756 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 323850005757 hypothetical protein; Provisional; Region: PRK05325 323850005758 PrkA family serine protein kinase; Provisional; Region: PRK15455 323850005759 AAA ATPase domain; Region: AAA_16; pfam13191 323850005760 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 323850005761 superoxide dismutase; Provisional; Region: PRK10543 323850005762 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 323850005763 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 323850005764 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 323850005765 putative GSH binding site [chemical binding]; other site 323850005766 catalytic residues [active] 323850005767 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 323850005768 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3249 323850005769 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 323850005770 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 323850005771 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 323850005772 Walker A motif; other site 323850005773 ATP binding site [chemical binding]; other site 323850005774 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 323850005775 Walker B motif; other site 323850005776 arginine finger; other site 323850005777 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 323850005778 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 323850005779 ArsC family; Region: ArsC; pfam03960 323850005780 catalytic residues [active] 323850005781 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 323850005782 Peptidase family M48; Region: Peptidase_M48; cl12018 323850005783 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 323850005784 CPxP motif; other site 323850005785 Domain of unknown function DUF20; Region: UPF0118; pfam01594 323850005786 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 323850005787 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 323850005788 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850005789 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 323850005790 putative dimerization interface [polypeptide binding]; other site 323850005791 Lysine efflux permease [General function prediction only]; Region: COG1279 323850005792 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 323850005793 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 323850005794 catalytic triad [active] 323850005795 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 323850005796 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 323850005797 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 323850005798 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 323850005799 dihydrodipicolinate synthase; Region: dapA; TIGR00674 323850005800 dimer interface [polypeptide binding]; other site 323850005801 active site 323850005802 catalytic residue [active] 323850005803 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 323850005804 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 323850005805 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 323850005806 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 323850005807 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 323850005808 GAF domain; Region: GAF_3; pfam13492 323850005809 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850005810 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850005811 metal binding site [ion binding]; metal-binding site 323850005812 active site 323850005813 I-site; other site 323850005814 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 323850005815 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323850005816 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323850005817 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850005818 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323850005819 Protein export membrane protein; Region: SecD_SecF; cl14618 323850005820 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 323850005821 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 323850005822 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 323850005823 Ligand binding site; other site 323850005824 oligomer interface; other site 323850005825 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 323850005826 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 323850005827 active site 323850005828 NAD binding site [chemical binding]; other site 323850005829 metal binding site [ion binding]; metal-binding site 323850005830 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 323850005831 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 323850005832 inhibitor-cofactor binding pocket; inhibition site 323850005833 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850005834 catalytic residue [active] 323850005835 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_cladeA; cd00883 323850005836 active site clefts [active] 323850005837 zinc binding site [ion binding]; other site 323850005838 dimer interface [polypeptide binding]; other site 323850005839 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 323850005840 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 323850005841 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; cl00470 323850005842 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 323850005843 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 323850005844 metal binding site [ion binding]; metal-binding site 323850005845 dimer interface [polypeptide binding]; other site 323850005846 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 323850005847 ArsC family; Region: ArsC; pfam03960 323850005848 putative catalytic residues [active] 323850005849 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 323850005850 HPr interaction site; other site 323850005851 glycerol kinase (GK) interaction site [polypeptide binding]; other site 323850005852 active site 323850005853 phosphorylation site [posttranslational modification] 323850005854 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 323850005855 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 323850005856 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 323850005857 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 323850005858 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 323850005859 dimerization domain swap beta strand [polypeptide binding]; other site 323850005860 regulatory protein interface [polypeptide binding]; other site 323850005861 active site 323850005862 regulatory phosphorylation site [posttranslational modification]; other site 323850005863 Uncharacterized conserved protein [Function unknown]; Region: COG3603 323850005864 Family description; Region: ACT_7; pfam13840 323850005865 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 323850005866 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 323850005867 dimerization interface [polypeptide binding]; other site 323850005868 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323850005869 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850005870 dimer interface [polypeptide binding]; other site 323850005871 putative CheW interface [polypeptide binding]; other site 323850005872 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 323850005873 Transcriptional regulators [Transcription]; Region: PurR; COG1609 323850005874 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 323850005875 DNA binding site [nucleotide binding] 323850005876 domain linker motif; other site 323850005877 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 323850005878 putative dimerization interface [polypeptide binding]; other site 323850005879 putative ligand binding site [chemical binding]; other site 323850005880 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 323850005881 active site 323850005882 catalytic site [active] 323850005883 substrate binding site [chemical binding]; other site 323850005884 elongation factor G; Reviewed; Region: PRK00007 323850005885 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 323850005886 G1 box; other site 323850005887 putative GEF interaction site [polypeptide binding]; other site 323850005888 GTP/Mg2+ binding site [chemical binding]; other site 323850005889 Switch I region; other site 323850005890 G2 box; other site 323850005891 G3 box; other site 323850005892 Switch II region; other site 323850005893 G4 box; other site 323850005894 G5 box; other site 323850005895 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 323850005896 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 323850005897 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 323850005898 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 323850005899 Domain interface; other site 323850005900 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 323850005901 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 323850005902 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 323850005903 Major Facilitator Superfamily; Region: MFS_1; pfam07690 323850005904 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 323850005905 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 323850005906 Peptidase family M28; Region: Peptidase_M28; pfam04389 323850005907 putative metal binding site [ion binding]; other site 323850005908 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 323850005909 Interdomain contacts; other site 323850005910 Cytokine receptor motif; other site 323850005911 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 323850005912 Uncharacterized conserved protein [Function unknown]; Region: COG3791 323850005913 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 323850005914 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 323850005915 FMN binding site [chemical binding]; other site 323850005916 substrate binding site [chemical binding]; other site 323850005917 putative catalytic residue [active] 323850005918 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850005919 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 323850005920 Coenzyme A binding pocket [chemical binding]; other site 323850005921 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 323850005922 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323850005923 Zn2+ binding site [ion binding]; other site 323850005924 Mg2+ binding site [ion binding]; other site 323850005925 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 323850005926 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 323850005927 ATP binding site [chemical binding]; other site 323850005928 Mg++ binding site [ion binding]; other site 323850005929 motif III; other site 323850005930 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 323850005931 nucleotide binding region [chemical binding]; other site 323850005932 ATP-binding site [chemical binding]; other site 323850005933 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 323850005934 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 323850005935 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 323850005936 active site 323850005937 catalytic site [active] 323850005938 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 323850005939 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 323850005940 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 323850005941 Ca binding site [ion binding]; other site 323850005942 active site 323850005943 homodimer interface [polypeptide binding]; other site 323850005944 catalytic site [active] 323850005945 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 323850005946 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 323850005947 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 323850005948 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 323850005949 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 323850005950 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 323850005951 active site 323850005952 catalytic site [active] 323850005953 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 323850005954 putative substrate translocation pore; other site 323850005955 glucose/galactose transporter; Region: gluP; TIGR01272 323850005956 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 323850005957 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 323850005958 S-adenosylmethionine binding site [chemical binding]; other site 323850005959 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 323850005960 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 323850005961 ATP binding site [chemical binding]; other site 323850005962 putative Mg++ binding site [ion binding]; other site 323850005963 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 323850005964 nucleotide binding region [chemical binding]; other site 323850005965 ATP-binding site [chemical binding]; other site 323850005966 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 323850005967 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 323850005968 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 323850005969 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 323850005970 catalytic residues [active] 323850005971 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 323850005972 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 323850005973 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 323850005974 ApbE family; Region: ApbE; pfam02424 323850005975 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 323850005976 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 323850005977 putative dimer interface [polypeptide binding]; other site 323850005978 putative anticodon binding site; other site 323850005979 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 323850005980 homodimer interface [polypeptide binding]; other site 323850005981 motif 1; other site 323850005982 motif 2; other site 323850005983 active site 323850005984 motif 3; other site 323850005985 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 323850005986 putative active site [active] 323850005987 putative CoA binding site [chemical binding]; other site 323850005988 nudix motif; other site 323850005989 metal binding site [ion binding]; metal-binding site 323850005990 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 323850005991 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 323850005992 chorismate binding enzyme; Region: Chorismate_bind; cl10555 323850005993 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 323850005994 Fumarase C-terminus; Region: Fumerase_C; pfam05683 323850005995 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 323850005996 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323850005997 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323850005998 putative acetyltransferase; Provisional; Region: PRK03624 323850005999 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850006000 Coenzyme A binding pocket [chemical binding]; other site 323850006001 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 323850006002 Uncharacterized conserved protein [Function unknown]; Region: COG3791 323850006003 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 323850006004 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 323850006005 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 323850006006 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 323850006007 putative catalytic cysteine [active] 323850006008 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 323850006009 putative active site [active] 323850006010 metal binding site [ion binding]; metal-binding site 323850006011 hypothetical protein; Provisional; Region: PRK11111 323850006012 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 323850006013 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323850006014 Zn2+ binding site [ion binding]; other site 323850006015 Mg2+ binding site [ion binding]; other site 323850006016 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 323850006017 5'-nucleotidase; Provisional; Region: PRK03826 323850006018 aminotransferase AlaT; Validated; Region: PRK09265 323850006019 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 323850006020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850006021 homodimer interface [polypeptide binding]; other site 323850006022 catalytic residue [active] 323850006023 elongation factor P; Validated; Region: PRK00529 323850006024 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 323850006025 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 323850006026 RNA binding site [nucleotide binding]; other site 323850006027 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 323850006028 RNA binding site [nucleotide binding]; other site 323850006029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 323850006030 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 323850006031 flavodoxin FldA; Validated; Region: PRK09267 323850006032 LexA regulated protein; Provisional; Region: PRK11675 323850006033 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 323850006034 acyl-CoA esterase; Provisional; Region: PRK10673 323850006035 PGAP1-like protein; Region: PGAP1; pfam07819 323850006036 replication initiation regulator SeqA; Provisional; Region: PRK11187 323850006037 phosphoglucomutase; Validated; Region: PRK07564 323850006038 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 323850006039 active site 323850006040 substrate binding site [chemical binding]; other site 323850006041 metal binding site [ion binding]; metal-binding site 323850006042 methionine sulfoxide reductase A; Provisional; Region: PRK14054 323850006043 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 323850006044 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 323850006045 putative active site [active] 323850006046 Zn binding site [ion binding]; other site 323850006047 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 323850006048 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 323850006049 tetramer interface [polypeptide binding]; other site 323850006050 TPP-binding site [chemical binding]; other site 323850006051 heterodimer interface [polypeptide binding]; other site 323850006052 phosphorylation loop region [posttranslational modification] 323850006053 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 323850006054 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 323850006055 alpha subunit interface [polypeptide binding]; other site 323850006056 TPP binding site [chemical binding]; other site 323850006057 heterodimer interface [polypeptide binding]; other site 323850006058 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 323850006059 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 323850006060 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 323850006061 E3 interaction surface; other site 323850006062 lipoyl attachment site [posttranslational modification]; other site 323850006063 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 323850006064 E3 interaction surface; other site 323850006065 lipoyl attachment site [posttranslational modification]; other site 323850006066 e3 binding domain; Region: E3_binding; pfam02817 323850006067 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 323850006068 quinolinate synthetase; Provisional; Region: PRK09375 323850006069 Nitrate and nitrite sensing; Region: NIT; pfam08376 323850006070 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 323850006071 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323850006072 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850006073 dimer interface [polypeptide binding]; other site 323850006074 putative CheW interface [polypeptide binding]; other site 323850006075 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 323850006076 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 323850006077 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 323850006078 PhnA protein; Region: PhnA; pfam03831 323850006079 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 323850006080 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 323850006081 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 323850006082 putative active site [active] 323850006083 catalytic site [active] 323850006084 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 323850006085 putative active site [active] 323850006086 catalytic site [active] 323850006087 hypothetical protein; Provisional; Region: PRK05421 323850006088 putative catalytic site [active] 323850006089 putative phosphate binding site [ion binding]; other site 323850006090 putative metal binding site [ion binding]; other site 323850006091 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323850006092 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 323850006093 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323850006094 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 323850006095 active site 323850006096 phosphorylation site [posttranslational modification] 323850006097 intermolecular recognition site; other site 323850006098 dimerization interface [polypeptide binding]; other site 323850006099 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 323850006100 DNA binding site [nucleotide binding] 323850006101 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 323850006102 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 323850006103 putative active site [active] 323850006104 Zn binding site [ion binding]; other site 323850006105 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 323850006106 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 323850006107 active site 323850006108 homodimer interface [polypeptide binding]; other site 323850006109 protease 4; Provisional; Region: PRK10949 323850006110 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 323850006111 tandem repeat interface [polypeptide binding]; other site 323850006112 oligomer interface [polypeptide binding]; other site 323850006113 active site residues [active] 323850006114 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 323850006115 tandem repeat interface [polypeptide binding]; other site 323850006116 oligomer interface [polypeptide binding]; other site 323850006117 active site residues [active] 323850006118 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 323850006119 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 323850006120 active site 323850006121 FMN binding site [chemical binding]; other site 323850006122 2,4-decadienoyl-CoA binding site; other site 323850006123 catalytic residue [active] 323850006124 4Fe-4S cluster binding site [ion binding]; other site 323850006125 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 323850006126 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 323850006127 YCII-related domain; Region: YCII; cl00999 323850006128 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 323850006129 catalytic loop [active] 323850006130 iron binding site [ion binding]; other site 323850006131 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 323850006132 dimer interface [polypeptide binding]; other site 323850006133 putative radical transfer pathway; other site 323850006134 diiron center [ion binding]; other site 323850006135 tyrosyl radical; other site 323850006136 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 323850006137 ATP cone domain; Region: ATP-cone; pfam03477 323850006138 Class I ribonucleotide reductase; Region: RNR_I; cd01679 323850006139 active site 323850006140 dimer interface [polypeptide binding]; other site 323850006141 catalytic residues [active] 323850006142 effector binding site; other site 323850006143 R2 peptide binding site; other site 323850006144 phosphoglycolate phosphatase; Provisional; Region: PRK13222 323850006145 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 323850006146 motif II; other site 323850006147 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 323850006148 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 323850006149 S-adenosylmethionine binding site [chemical binding]; other site 323850006150 DNA gyrase subunit A; Validated; Region: PRK05560 323850006151 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 323850006152 CAP-like domain; other site 323850006153 active site 323850006154 primary dimer interface [polypeptide binding]; other site 323850006155 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323850006156 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323850006157 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323850006158 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323850006159 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323850006160 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323850006161 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 323850006162 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323850006163 catalytic residue [active] 323850006164 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 323850006165 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 323850006166 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850006167 homodimer interface [polypeptide binding]; other site 323850006168 catalytic residue [active] 323850006169 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 323850006170 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 323850006171 hinge; other site 323850006172 active site 323850006173 cytidylate kinase; Provisional; Region: cmk; PRK00023 323850006174 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 323850006175 CMP-binding site; other site 323850006176 The sites determining sugar specificity; other site 323850006177 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 323850006178 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 323850006179 RNA binding site [nucleotide binding]; other site 323850006180 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 323850006181 RNA binding site [nucleotide binding]; other site 323850006182 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 323850006183 RNA binding site [nucleotide binding]; other site 323850006184 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 323850006185 RNA binding site [nucleotide binding]; other site 323850006186 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 323850006187 RNA binding site [nucleotide binding]; other site 323850006188 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 323850006189 RNA binding site [nucleotide binding]; other site 323850006190 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 323850006191 IHF dimer interface [polypeptide binding]; other site 323850006192 IHF - DNA interface [nucleotide binding]; other site 323850006193 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 323850006194 tetratricopeptide repeat protein; Provisional; Region: PRK11788 323850006195 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 323850006196 binding surface 323850006197 TPR motif; other site 323850006198 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 323850006199 active site 323850006200 dimer interface [polypeptide binding]; other site 323850006201 short chain dehydrogenase; Provisional; Region: PRK07576 323850006202 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 323850006203 NAD(P) binding site [chemical binding]; other site 323850006204 substrate binding site [chemical binding]; other site 323850006205 homotetramer interface [polypeptide binding]; other site 323850006206 active site 323850006207 homodimer interface [polypeptide binding]; other site 323850006208 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 323850006209 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 323850006210 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 323850006211 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 323850006212 active site 323850006213 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 323850006214 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 323850006215 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 323850006216 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 323850006217 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 323850006218 domain interface [polypeptide binding]; other site 323850006219 putative active site [active] 323850006220 catalytic site [active] 323850006221 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 323850006222 domain interface [polypeptide binding]; other site 323850006223 putative active site [active] 323850006224 catalytic site [active] 323850006225 Uncharacterized conserved protein [Function unknown]; Region: COG3148 323850006226 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 323850006227 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 323850006228 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 323850006229 active site 323850006230 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 323850006231 Beta-lactamase; Region: Beta-lactamase; pfam00144 323850006232 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 323850006233 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 323850006234 active site 323850006235 phosphorylation site [posttranslational modification] 323850006236 intermolecular recognition site; other site 323850006237 dimerization interface [polypeptide binding]; other site 323850006238 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 323850006239 DNA binding residues [nucleotide binding] 323850006240 dimerization interface [polypeptide binding]; other site 323850006241 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 323850006242 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 323850006243 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 323850006244 dimer interface [polypeptide binding]; other site 323850006245 phosphorylation site [posttranslational modification] 323850006246 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 323850006247 ATP binding site [chemical binding]; other site 323850006248 Mg2+ binding site [ion binding]; other site 323850006249 G-X-G motif; other site 323850006250 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 323850006251 ApbE family; Region: ApbE; pfam02424 323850006252 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 323850006253 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 323850006254 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 323850006255 trimer interface [polypeptide binding]; other site 323850006256 eyelet of channel; other site 323850006257 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 323850006258 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 323850006259 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 323850006260 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 323850006261 DHHA2 domain; Region: DHHA2; pfam02833 323850006262 AAA domain; Region: AAA_32; pfam13654 323850006263 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 323850006264 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 323850006265 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 323850006266 PAS domain S-box; Region: sensory_box; TIGR00229 323850006267 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 323850006268 putative active site [active] 323850006269 heme pocket [chemical binding]; other site 323850006270 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850006271 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850006272 metal binding site [ion binding]; metal-binding site 323850006273 active site 323850006274 I-site; other site 323850006275 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 323850006276 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323850006277 Erv1 / Alr family; Region: Evr1_Alr; cl02107 323850006278 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 323850006279 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 323850006280 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 323850006281 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 323850006282 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850006283 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 323850006284 Int/Topo IB signature motif; other site 323850006285 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323850006286 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 323850006287 active site 323850006288 phosphorylation site [posttranslational modification] 323850006289 intermolecular recognition site; other site 323850006290 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 323850006291 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323850006292 Zn2+ binding site [ion binding]; other site 323850006293 Mg2+ binding site [ion binding]; other site 323850006294 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 323850006295 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 323850006296 Low-spin heme binding site [chemical binding]; other site 323850006297 Putative water exit pathway; other site 323850006298 Binuclear center (active site) [active] 323850006299 Putative proton exit pathway; other site 323850006300 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 323850006301 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 323850006302 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 323850006303 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 323850006304 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 323850006305 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 323850006306 Cytochrome c; Region: Cytochrom_C; pfam00034 323850006307 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 323850006308 FixH; Region: FixH; pfam05751 323850006309 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 323850006310 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 323850006311 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 323850006312 metal-binding site [ion binding] 323850006313 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323850006314 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 323850006315 motif II; other site 323850006316 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 323850006317 Family description; Region: DsbD_2; pfam13386 323850006318 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 323850006319 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 323850006320 ligand binding site [chemical binding]; other site 323850006321 flexible hinge region; other site 323850006322 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 323850006323 putative switch regulator; other site 323850006324 non-specific DNA interactions [nucleotide binding]; other site 323850006325 DNA binding site [nucleotide binding] 323850006326 sequence specific DNA binding site [nucleotide binding]; other site 323850006327 putative cAMP binding site [chemical binding]; other site 323850006328 universal stress protein UspE; Provisional; Region: PRK11175 323850006329 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 323850006330 Ligand Binding Site [chemical binding]; other site 323850006331 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 323850006332 Ligand Binding Site [chemical binding]; other site 323850006333 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 323850006334 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 323850006335 Ligand Binding Site [chemical binding]; other site 323850006336 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 323850006337 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 323850006338 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 323850006339 phosphate binding site [ion binding]; other site 323850006340 putative substrate binding pocket [chemical binding]; other site 323850006341 dimer interface [polypeptide binding]; other site 323850006342 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 323850006343 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 323850006344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850006345 homodimer interface [polypeptide binding]; other site 323850006346 catalytic residue [active] 323850006347 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 323850006348 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 323850006349 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 323850006350 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 323850006351 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 323850006352 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 323850006353 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 323850006354 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 323850006355 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 323850006356 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850006357 Coenzyme A binding pocket [chemical binding]; other site 323850006358 C factor cell-cell signaling protein; Provisional; Region: PRK09009 323850006359 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 323850006360 NADP binding site [chemical binding]; other site 323850006361 homodimer interface [polypeptide binding]; other site 323850006362 active site 323850006363 Ecdysteroid kinase; Region: EcKinase; cl17738 323850006364 Phosphotransferase enzyme family; Region: APH; pfam01636 323850006365 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323850006366 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850006367 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323850006368 Protein of unknown function (DUF983); Region: DUF983; cl02211 323850006369 Protein export membrane protein; Region: SecD_SecF; cl14618 323850006370 putative transporter; Provisional; Region: PRK11043 323850006371 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 323850006372 putative substrate translocation pore; other site 323850006373 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 323850006374 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850006375 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 323850006376 dimerization interface [polypeptide binding]; other site 323850006377 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 323850006378 YccA-like proteins; Region: YccA_like; cd10433 323850006379 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 323850006380 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 323850006381 DsrH like protein; Region: DsrH; cl17347 323850006382 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 323850006383 DsrC like protein; Region: DsrC; pfam04358 323850006384 seryl-tRNA synthetase; Provisional; Region: PRK05431 323850006385 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 323850006386 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 323850006387 dimer interface [polypeptide binding]; other site 323850006388 active site 323850006389 motif 1; other site 323850006390 motif 2; other site 323850006391 motif 3; other site 323850006392 camphor resistance protein CrcB; Provisional; Region: PRK14197 323850006393 recombination factor protein RarA; Reviewed; Region: PRK13342 323850006394 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 323850006395 Walker A motif; other site 323850006396 ATP binding site [chemical binding]; other site 323850006397 Walker B motif; other site 323850006398 arginine finger; other site 323850006399 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 323850006400 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 323850006401 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 323850006402 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 323850006403 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 323850006404 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 323850006405 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 323850006406 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 323850006407 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 323850006408 putative DNA binding site [nucleotide binding]; other site 323850006409 putative Zn2+ binding site [ion binding]; other site 323850006410 AsnC family; Region: AsnC_trans_reg; pfam01037 323850006411 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 323850006412 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 323850006413 hexamer interface [polypeptide binding]; other site 323850006414 ligand binding site [chemical binding]; other site 323850006415 putative active site [active] 323850006416 NAD(P) binding site [chemical binding]; other site 323850006417 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 323850006418 NAD binding site [chemical binding]; other site 323850006419 thioredoxin reductase; Provisional; Region: PRK10262 323850006420 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 323850006421 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323850006422 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 323850006423 23S rRNA binding site [nucleotide binding]; other site 323850006424 L21 binding site [polypeptide binding]; other site 323850006425 L13 binding site [polypeptide binding]; other site 323850006426 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 323850006427 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 323850006428 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 323850006429 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 323850006430 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 323850006431 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 323850006432 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 323850006433 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 323850006434 active site 323850006435 dimer interface [polypeptide binding]; other site 323850006436 motif 1; other site 323850006437 motif 2; other site 323850006438 motif 3; other site 323850006439 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 323850006440 anticodon binding site; other site 323850006441 pteridine reductase; Provisional; Region: PRK09135 323850006442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323850006443 NAD(P) binding site [chemical binding]; other site 323850006444 active site 323850006445 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 323850006446 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 323850006447 Lumazine binding domain; Region: Lum_binding; pfam00677 323850006448 Lumazine binding domain; Region: Lum_binding; pfam00677 323850006449 multidrug efflux protein; Reviewed; Region: PRK01766 323850006450 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 323850006451 cation binding site [ion binding]; other site 323850006452 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 323850006453 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 323850006454 CoA binding domain; Region: CoA_binding_2; pfam13380 323850006455 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 323850006456 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 323850006457 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 323850006458 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850006459 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850006460 metal binding site [ion binding]; metal-binding site 323850006461 active site 323850006462 I-site; other site 323850006463 putative metal dependent hydrolase; Provisional; Region: PRK11598 323850006464 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 323850006465 Sulfatase; Region: Sulfatase; pfam00884 323850006466 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 323850006467 MarR family; Region: MarR; pfam01047 323850006468 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 323850006469 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 323850006470 ecotin; Provisional; Region: PRK03719 323850006471 secondary substrate binding site; other site 323850006472 primary substrate binding site; other site 323850006473 inhibition loop; other site 323850006474 dimerization interface [polypeptide binding]; other site 323850006475 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 323850006476 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 323850006477 active site 323850006478 intersubunit interface [polypeptide binding]; other site 323850006479 catalytic residue [active] 323850006480 phosphogluconate dehydratase; Validated; Region: PRK09054 323850006481 6-phosphogluconate dehydratase; Region: edd; TIGR01196 323850006482 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 323850006483 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 323850006484 putative active site [active] 323850006485 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 323850006486 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 323850006487 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 323850006488 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 323850006489 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 323850006490 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 323850006491 putative active site [active] 323850006492 pyruvate kinase; Provisional; Region: PRK05826 323850006493 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 323850006494 domain interfaces; other site 323850006495 active site 323850006496 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 323850006497 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 323850006498 active site 323850006499 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 323850006500 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323850006501 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323850006502 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 323850006503 active site 323850006504 Zn binding site [ion binding]; other site 323850006505 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 323850006506 Smr domain; Region: Smr; pfam01713 323850006507 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 323850006508 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 323850006509 SEC-C motif; Region: SEC-C; pfam02810 323850006510 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 323850006511 GAF domain; Region: GAF; pfam01590 323850006512 RNase II stability modulator; Provisional; Region: PRK10060 323850006513 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850006514 metal binding site [ion binding]; metal-binding site 323850006515 active site 323850006516 I-site; other site 323850006517 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 323850006518 Protein of unknown function (DUF406); Region: DUF406; pfam04175 323850006519 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 323850006520 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 323850006521 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 323850006522 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323850006523 catalytic residue [active] 323850006524 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 323850006525 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 323850006526 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 323850006527 Ligand Binding Site [chemical binding]; other site 323850006528 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 323850006529 excinuclease ABC subunit B; Provisional; Region: PRK05298 323850006530 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 323850006531 ATP binding site [chemical binding]; other site 323850006532 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 323850006533 nucleotide binding region [chemical binding]; other site 323850006534 ATP-binding site [chemical binding]; other site 323850006535 Ultra-violet resistance protein B; Region: UvrB; pfam12344 323850006536 UvrB/uvrC motif; Region: UVR; pfam02151 323850006537 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850006538 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850006539 active site 323850006540 I-site; other site 323850006541 metal binding site [ion binding]; metal-binding site 323850006542 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 323850006543 electron transport complex protein RsxA; Provisional; Region: PRK05151 323850006544 ferredoxin; Provisional; Region: PRK08764 323850006545 Putative Fe-S cluster; Region: FeS; pfam04060 323850006546 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 323850006547 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 323850006548 SLBB domain; Region: SLBB; pfam10531 323850006549 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 323850006550 electron transport complex protein RnfG; Validated; Region: PRK01908 323850006551 electron transport complex RsxE subunit; Provisional; Region: PRK12405 323850006552 endonuclease III; Provisional; Region: PRK10702 323850006553 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 323850006554 minor groove reading motif; other site 323850006555 helix-hairpin-helix signature motif; other site 323850006556 substrate binding pocket [chemical binding]; other site 323850006557 active site 323850006558 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 323850006559 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323850006560 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 323850006561 dimer interface [polypeptide binding]; other site 323850006562 active site 323850006563 metal binding site [ion binding]; metal-binding site 323850006564 glutathione binding site [chemical binding]; other site 323850006565 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 323850006566 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 323850006567 N-terminal plug; other site 323850006568 ligand-binding site [chemical binding]; other site 323850006569 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 323850006570 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 323850006571 Walker A motif; other site 323850006572 ATP binding site [chemical binding]; other site 323850006573 Walker B motif; other site 323850006574 arginine finger; other site 323850006575 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 323850006576 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 323850006577 RuvA N terminal domain; Region: RuvA_N; pfam01330 323850006578 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 323850006579 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 323850006580 active site 323850006581 putative DNA-binding cleft [nucleotide binding]; other site 323850006582 dimer interface [polypeptide binding]; other site 323850006583 hypothetical protein; Validated; Region: PRK00110 323850006584 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 323850006585 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 323850006586 dimer interface [polypeptide binding]; other site 323850006587 anticodon binding site; other site 323850006588 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 323850006589 homodimer interface [polypeptide binding]; other site 323850006590 motif 1; other site 323850006591 active site 323850006592 motif 2; other site 323850006593 GAD domain; Region: GAD; pfam02938 323850006594 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 323850006595 active site 323850006596 motif 3; other site 323850006597 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323850006598 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 323850006599 substrate binding pocket [chemical binding]; other site 323850006600 membrane-bound complex binding site; other site 323850006601 hinge residues; other site 323850006602 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323850006603 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 323850006604 substrate binding pocket [chemical binding]; other site 323850006605 membrane-bound complex binding site; other site 323850006606 hinge residues; other site 323850006607 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 323850006608 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323850006609 substrate binding pocket [chemical binding]; other site 323850006610 membrane-bound complex binding site; other site 323850006611 hinge residues; other site 323850006612 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850006613 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850006614 metal binding site [ion binding]; metal-binding site 323850006615 active site 323850006616 I-site; other site 323850006617 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 323850006618 S-adenosylmethionine binding site [chemical binding]; other site 323850006619 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323850006620 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 323850006621 S-adenosylmethionine binding site [chemical binding]; other site 323850006622 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 323850006623 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 323850006624 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 323850006625 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 323850006626 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 323850006627 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 323850006628 Domain of unknown function (DUF3541); Region: DUF3541; pfam12060 323850006629 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850006630 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850006631 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 323850006632 dimerization interface [polypeptide binding]; other site 323850006633 SprA-related family; Region: SprA-related; pfam12118 323850006634 hydroperoxidase II; Provisional; Region: katE; PRK11249 323850006635 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 323850006636 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 323850006637 FeS/SAM binding site; other site 323850006638 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 323850006639 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 323850006640 ThiS interaction site; other site 323850006641 putative active site [active] 323850006642 tetramer interface [polypeptide binding]; other site 323850006643 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 323850006644 thiS-thiF/thiG interaction site; other site 323850006645 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 323850006646 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 323850006647 ATP binding site [chemical binding]; other site 323850006648 substrate interface [chemical binding]; other site 323850006649 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 323850006650 dimer interface [polypeptide binding]; other site 323850006651 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 323850006652 substrate binding site [chemical binding]; other site 323850006653 ATP binding site [chemical binding]; other site 323850006654 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 323850006655 thiamine phosphate binding site [chemical binding]; other site 323850006656 active site 323850006657 pyrophosphate binding site [ion binding]; other site 323850006658 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 323850006659 ThiC-associated domain; Region: ThiC-associated; pfam13667 323850006660 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 323850006661 Haemolysin-III related; Region: HlyIII; cl03831 323850006662 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 323850006663 DTW domain; Region: DTW; cl01221 323850006664 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 323850006665 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 323850006666 putative active site [active] 323850006667 putative PHP Thumb interface [polypeptide binding]; other site 323850006668 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 323850006669 generic binding surface I; other site 323850006670 generic binding surface II; other site 323850006671 Y-family of DNA polymerases; Region: PolY; cl12025 323850006672 active site 323850006673 DNA Polymerase Y-family; Region: PolY_like; cd03468 323850006674 DNA binding site [nucleotide binding] 323850006675 Uncharacterized conserved protein [Function unknown]; Region: COG4544 323850006676 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 323850006677 active site 323850006678 catalytic residues [active] 323850006679 metal binding site [ion binding]; metal-binding site 323850006680 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 323850006681 putative substrate translocation pore; other site 323850006682 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 323850006683 active site 323850006684 DNA binding site [nucleotide binding] 323850006685 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 323850006686 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 323850006687 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 323850006688 putative active site [active] 323850006689 putative dimer interface [polypeptide binding]; other site 323850006690 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 323850006691 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 323850006692 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 323850006693 active site 323850006694 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 323850006695 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 323850006696 TrkA-N domain; Region: TrkA_N; pfam02254 323850006697 TIGR03503 family protein; Region: TIGR03503 323850006698 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 323850006699 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 323850006700 active site 323850006701 catalytic site [active] 323850006702 substrate binding site [chemical binding]; other site 323850006703 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 323850006704 RNA/DNA hybrid binding site [nucleotide binding]; other site 323850006705 active site 323850006706 Methyltransferase domain; Region: Methyltransf_11; pfam08241 323850006707 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 323850006708 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 323850006709 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323850006710 catalytic residue [active] 323850006711 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323850006712 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 323850006713 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323850006714 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 323850006715 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323850006716 AsmA family; Region: AsmA; pfam05170 323850006717 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 323850006718 ribonuclease activity regulator protein RraA; Reviewed; Region: PRK12487 323850006719 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 323850006720 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 323850006721 dimerization interface [polypeptide binding]; other site 323850006722 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323850006723 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850006724 dimer interface [polypeptide binding]; other site 323850006725 putative CheW interface [polypeptide binding]; other site 323850006726 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 323850006727 NMT1/THI5 like; Region: NMT1; pfam09084 323850006728 substrate binding pocket [chemical binding]; other site 323850006729 membrane-bound complex binding site; other site 323850006730 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 323850006731 dimerization interface [polypeptide binding]; other site 323850006732 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850006733 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850006734 metal binding site [ion binding]; metal-binding site 323850006735 active site 323850006736 I-site; other site 323850006737 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 323850006738 TMAO/DMSO reductase; Reviewed; Region: PRK05363 323850006739 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 323850006740 Moco binding site; other site 323850006741 metal coordination site [ion binding]; other site 323850006742 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 323850006743 RmuC family; Region: RmuC; pfam02646 323850006744 lytic murein transglycosylase; Provisional; Region: PRK11619 323850006745 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 323850006746 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323850006747 catalytic residue [active] 323850006748 MoxR-like ATPases [General function prediction only]; Region: COG0714 323850006749 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 323850006750 Walker A motif; other site 323850006751 ATP binding site [chemical binding]; other site 323850006752 Walker B motif; other site 323850006753 arginine finger; other site 323850006754 Protein of unknown function DUF58; Region: DUF58; pfam01882 323850006755 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 323850006756 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 323850006757 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 323850006758 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 323850006759 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 323850006760 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 323850006761 Part of AAA domain; Region: AAA_19; pfam13245 323850006762 Family description; Region: UvrD_C_2; pfam13538 323850006763 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 323850006764 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 323850006765 AAA domain; Region: AAA_30; pfam13604 323850006766 Family description; Region: UvrD_C_2; pfam13538 323850006767 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 323850006768 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 323850006769 ATP-grasp domain; Region: ATP-grasp_4; cl17255 323850006770 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 323850006771 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 323850006772 putative dimer interface [polypeptide binding]; other site 323850006773 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 323850006774 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 323850006775 active site 323850006776 metal binding site [ion binding]; metal-binding site 323850006777 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 323850006778 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 323850006779 putative hydrolase; Provisional; Region: PRK11460 323850006780 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 323850006781 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 323850006782 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 323850006783 putative dimer interface [polypeptide binding]; other site 323850006784 N-terminal domain interface [polypeptide binding]; other site 323850006785 putative substrate binding pocket (H-site) [chemical binding]; other site 323850006786 Protein of unknown function (DUF3389); Region: DUF3389; pfam11869 323850006787 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 323850006788 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 323850006789 Predicted transcriptional regulator [Transcription]; Region: COG2378 323850006790 WYL domain; Region: WYL; pfam13280 323850006791 Transglycosylase SLT domain; Region: SLT_2; pfam13406 323850006792 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 323850006793 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323850006794 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 323850006795 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 323850006796 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 323850006797 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323850006798 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 323850006799 active site 323850006800 phosphorylation site [posttranslational modification] 323850006801 intermolecular recognition site; other site 323850006802 dimerization interface [polypeptide binding]; other site 323850006803 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 323850006804 Mechanosensitive ion channel; Region: MS_channel; pfam00924 323850006805 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 323850006806 hypothetical protein; Provisional; Region: PRK11770 323850006807 Domain of unknown function (DUF307); Region: DUF307; pfam03733 323850006808 Domain of unknown function (DUF307); Region: DUF307; pfam03733 323850006809 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323850006810 Putative transmembrane protein (PGPGW); Region: PGPGW; pfam09656 323850006811 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850006812 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850006813 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 323850006814 dimerization interface [polypeptide binding]; other site 323850006815 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 323850006816 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 323850006817 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 323850006818 dimer interface [polypeptide binding]; other site 323850006819 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 323850006820 active site 323850006821 Fe binding site [ion binding]; other site 323850006822 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 323850006823 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 323850006824 Protein of unknown function, DUF482; Region: DUF482; pfam04339 323850006825 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 323850006826 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 323850006827 PAS domain; Region: PAS_9; pfam13426 323850006828 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 323850006829 putative active site [active] 323850006830 heme pocket [chemical binding]; other site 323850006831 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 323850006832 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850006833 dimer interface [polypeptide binding]; other site 323850006834 putative CheW interface [polypeptide binding]; other site 323850006835 hypothetical protein; Provisional; Region: PRK06156 323850006836 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 323850006837 active site 323850006838 metal binding site [ion binding]; metal-binding site 323850006839 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 323850006840 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 323850006841 active site 323850006842 Zn binding site [ion binding]; other site 323850006843 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 323850006844 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 323850006845 active site 323850006846 metal binding site [ion binding]; metal-binding site 323850006847 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 323850006848 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 323850006849 S-adenosylmethionine binding site [chemical binding]; other site 323850006850 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 323850006851 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 323850006852 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 323850006853 active site 323850006854 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 323850006855 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 323850006856 active site 323850006857 phosphate binding residues; other site 323850006858 catalytic residues [active] 323850006859 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 323850006860 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 323850006861 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 323850006862 universal stress protein UspE; Provisional; Region: PRK11175 323850006863 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 323850006864 Ligand Binding Site [chemical binding]; other site 323850006865 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 323850006866 Ligand Binding Site [chemical binding]; other site 323850006867 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 323850006868 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 323850006869 generic binding surface II; other site 323850006870 generic binding surface I; other site 323850006871 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 323850006872 putative active site [active] 323850006873 putative catalytic site [active] 323850006874 putative Mg binding site IVb [ion binding]; other site 323850006875 putative phosphate binding site [ion binding]; other site 323850006876 putative DNA binding site [nucleotide binding]; other site 323850006877 putative Mg binding site IVa [ion binding]; other site 323850006878 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 323850006879 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 323850006880 catalytic nucleophile [active] 323850006881 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 323850006882 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323850006883 Surface antigen; Region: Bac_surface_Ag; pfam01103 323850006884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 323850006885 Family of unknown function (DUF490); Region: DUF490; pfam04357 323850006886 fatty acid metabolism regulator; Provisional; Region: PRK04984 323850006887 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 323850006888 DNA-binding site [nucleotide binding]; DNA binding site 323850006889 FadR C-terminal domain; Region: FadR_C; pfam07840 323850006890 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 323850006891 disulfide bond formation protein B; Provisional; Region: PRK01749 323850006892 hypothetical protein; Provisional; Region: PRK05170 323850006893 Transglycosylase SLT domain; Region: SLT_2; pfam13406 323850006894 murein hydrolase B; Provisional; Region: PRK10760; cl17906 323850006895 YcgL domain; Region: YcgL; pfam05166 323850006896 septum formation inhibitor; Reviewed; Region: minC; PRK04804 323850006897 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 323850006898 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 323850006899 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 323850006900 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 323850006901 Switch I; other site 323850006902 Switch II; other site 323850006903 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 323850006904 ribonuclease D; Region: rnd; TIGR01388 323850006905 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 323850006906 catalytic site [active] 323850006907 putative active site [active] 323850006908 putative substrate binding site [chemical binding]; other site 323850006909 HRDC domain; Region: HRDC; pfam00570 323850006910 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 323850006911 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 323850006912 acyl-activating enzyme (AAE) consensus motif; other site 323850006913 putative AMP binding site [chemical binding]; other site 323850006914 putative active site [active] 323850006915 putative CoA binding site [chemical binding]; other site 323850006916 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 323850006917 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 323850006918 Predicted methyltransferase [General function prediction only]; Region: COG4798 323850006919 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323850006920 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 323850006921 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 323850006922 Glycoprotease family; Region: Peptidase_M22; pfam00814 323850006923 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 323850006924 EamA-like transporter family; Region: EamA; pfam00892 323850006925 EamA-like transporter family; Region: EamA; pfam00892 323850006926 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 323850006927 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323850006928 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 323850006929 DEAD/DEAH box helicase; Region: DEAD; pfam00270 323850006930 DEAD_2; Region: DEAD_2; pfam06733 323850006931 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 323850006932 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 323850006933 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 323850006934 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 323850006935 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 323850006936 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 323850006937 NAD binding site [chemical binding]; other site 323850006938 dimerization interface [polypeptide binding]; other site 323850006939 product binding site; other site 323850006940 substrate binding site [chemical binding]; other site 323850006941 zinc binding site [ion binding]; other site 323850006942 catalytic residues [active] 323850006943 histidinol-phosphate aminotransferase; Provisional; Region: PRK04635 323850006944 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 323850006945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850006946 homodimer interface [polypeptide binding]; other site 323850006947 catalytic residue [active] 323850006948 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 323850006949 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 323850006950 active site 323850006951 motif I; other site 323850006952 motif II; other site 323850006953 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 323850006954 putative active site pocket [active] 323850006955 4-fold oligomerization interface [polypeptide binding]; other site 323850006956 metal binding residues [ion binding]; metal-binding site 323850006957 3-fold/trimer interface [polypeptide binding]; other site 323850006958 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 323850006959 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 323850006960 putative active site [active] 323850006961 oxyanion strand; other site 323850006962 catalytic triad [active] 323850006963 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 323850006964 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 323850006965 catalytic residues [active] 323850006966 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 323850006967 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 323850006968 substrate binding site [chemical binding]; other site 323850006969 glutamase interaction surface [polypeptide binding]; other site 323850006970 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 323850006971 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 323850006972 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 323850006973 metal binding site [ion binding]; metal-binding site 323850006974 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850006975 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850006976 metal binding site [ion binding]; metal-binding site 323850006977 active site 323850006978 I-site; other site 323850006979 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323850006980 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 323850006981 active site 323850006982 phosphorylation site [posttranslational modification] 323850006983 intermolecular recognition site; other site 323850006984 dimerization interface [polypeptide binding]; other site 323850006985 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 323850006986 DNA binding site [nucleotide binding] 323850006987 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 323850006988 binding surface 323850006989 TPR motif; other site 323850006990 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323850006991 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323850006992 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 323850006993 binding surface 323850006994 TPR motif; other site 323850006995 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323850006996 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 323850006997 dimer interface [polypeptide binding]; other site 323850006998 phosphorylation site [posttranslational modification] 323850006999 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 323850007000 ATP binding site [chemical binding]; other site 323850007001 Mg2+ binding site [ion binding]; other site 323850007002 G-X-G motif; other site 323850007003 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 323850007004 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 323850007005 active site 323850007006 catalytic residues [active] 323850007007 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 323850007008 PA/protease or protease-like domain interface [polypeptide binding]; other site 323850007009 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 323850007010 catalytic residues [active] 323850007011 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 323850007012 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 323850007013 catalytic triad [active] 323850007014 putative active site [active] 323850007015 Regulatory P domain of the subtilisin-like proprotein convertases and other proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG4935 323850007016 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 323850007017 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 323850007018 FOG: PKD repeat [General function prediction only]; Region: COG3291 323850007019 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 323850007020 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 323850007021 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 323850007022 ATP binding site [chemical binding]; other site 323850007023 active site 323850007024 substrate binding site [chemical binding]; other site 323850007025 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 323850007026 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 323850007027 active site 323850007028 Zn binding site [ion binding]; other site 323850007029 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 323850007030 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 323850007031 putative acyl-acceptor binding pocket; other site 323850007032 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 323850007033 IHF dimer interface [polypeptide binding]; other site 323850007034 IHF - DNA interface [nucleotide binding]; other site 323850007035 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 323850007036 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 323850007037 putative tRNA-binding site [nucleotide binding]; other site 323850007038 B3/4 domain; Region: B3_4; pfam03483 323850007039 tRNA synthetase B5 domain; Region: B5; smart00874 323850007040 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 323850007041 dimer interface [polypeptide binding]; other site 323850007042 motif 1; other site 323850007043 motif 3; other site 323850007044 motif 2; other site 323850007045 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 323850007046 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 323850007047 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 323850007048 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 323850007049 dimer interface [polypeptide binding]; other site 323850007050 motif 1; other site 323850007051 active site 323850007052 motif 2; other site 323850007053 motif 3; other site 323850007054 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323850007055 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850007056 dimer interface [polypeptide binding]; other site 323850007057 putative CheW interface [polypeptide binding]; other site 323850007058 Cache domain; Region: Cache_1; pfam02743 323850007059 PAS fold; Region: PAS_4; pfam08448 323850007060 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 323850007061 ATP binding site [chemical binding]; other site 323850007062 Mg2+ binding site [ion binding]; other site 323850007063 G-X-G motif; other site 323850007064 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 323850007065 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 323850007066 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 323850007067 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 323850007068 YceI-like domain; Region: YceI; pfam04264 323850007069 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 323850007070 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 323850007071 active site 323850007072 interdomain interaction site; other site 323850007073 putative metal-binding site [ion binding]; other site 323850007074 nucleotide binding site [chemical binding]; other site 323850007075 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 323850007076 domain I; other site 323850007077 DNA binding groove [nucleotide binding] 323850007078 phosphate binding site [ion binding]; other site 323850007079 domain II; other site 323850007080 domain III; other site 323850007081 nucleotide binding site [chemical binding]; other site 323850007082 catalytic site [active] 323850007083 domain IV; other site 323850007084 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 323850007085 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 323850007086 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 323850007087 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 323850007088 succinylarginine dihydrolase; Provisional; Region: PRK13281 323850007089 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 323850007090 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 323850007091 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 323850007092 inosine/guanosine kinase; Provisional; Region: PRK15074 323850007093 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 323850007094 ferrochelatase; Reviewed; Region: hemH; PRK00035 323850007095 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 323850007096 C-terminal domain interface [polypeptide binding]; other site 323850007097 active site 323850007098 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 323850007099 active site 323850007100 N-terminal domain interface [polypeptide binding]; other site 323850007101 adenylate kinase; Reviewed; Region: adk; PRK00279 323850007102 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 323850007103 AMP-binding site [chemical binding]; other site 323850007104 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 323850007105 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 323850007106 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 323850007107 heat shock protein 90; Provisional; Region: PRK05218 323850007108 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 323850007109 ATP binding site [chemical binding]; other site 323850007110 Mg2+ binding site [ion binding]; other site 323850007111 G-X-G motif; other site 323850007112 recombination protein RecR; Reviewed; Region: recR; PRK00076 323850007113 RecR protein; Region: RecR; pfam02132 323850007114 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 323850007115 putative active site [active] 323850007116 putative metal-binding site [ion binding]; other site 323850007117 tetramer interface [polypeptide binding]; other site 323850007118 hypothetical protein; Validated; Region: PRK00153 323850007119 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 323850007120 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 323850007121 Walker A motif; other site 323850007122 ATP binding site [chemical binding]; other site 323850007123 Walker B motif; other site 323850007124 DNA polymerase III subunit delta'; Validated; Region: PRK08485 323850007125 arginine finger; other site 323850007126 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 323850007127 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 323850007128 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323850007129 active site 323850007130 Protein of unknown function (DUF454); Region: DUF454; cl01063 323850007131 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 323850007132 hypothetical protein; Provisional; Region: PRK05409 323850007133 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 323850007134 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 323850007135 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 323850007136 FMN binding site [chemical binding]; other site 323850007137 active site 323850007138 catalytic residues [active] 323850007139 substrate binding site [chemical binding]; other site 323850007140 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 323850007141 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 323850007142 N-terminal plug; other site 323850007143 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 323850007144 ligand-binding site [chemical binding]; other site 323850007145 BNR repeat-like domain; Region: BNR_2; pfam13088 323850007146 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 323850007147 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 323850007148 RNA binding surface [nucleotide binding]; other site 323850007149 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 323850007150 probable active site [active] 323850007151 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 323850007152 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 323850007153 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 323850007154 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 323850007155 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 323850007156 active site 323850007157 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 323850007158 anthranilate synthase component I; Provisional; Region: PRK13564 323850007159 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 323850007160 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 323850007161 Glutamine amidotransferase class-I; Region: GATase; pfam00117 323850007162 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 323850007163 glutamine binding [chemical binding]; other site 323850007164 catalytic triad [active] 323850007165 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 323850007166 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 323850007167 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 323850007168 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 323850007169 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 323850007170 active site 323850007171 ribulose/triose binding site [chemical binding]; other site 323850007172 phosphate binding site [ion binding]; other site 323850007173 substrate (anthranilate) binding pocket [chemical binding]; other site 323850007174 product (indole) binding pocket [chemical binding]; other site 323850007175 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 323850007176 active site 323850007177 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 323850007178 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 323850007179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850007180 catalytic residue [active] 323850007181 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 323850007182 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 323850007183 substrate binding site [chemical binding]; other site 323850007184 active site 323850007185 catalytic residues [active] 323850007186 heterodimer interface [polypeptide binding]; other site 323850007187 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 323850007188 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 323850007189 active site 323850007190 motif I; other site 323850007191 motif II; other site 323850007192 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 323850007193 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 323850007194 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 323850007195 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323850007196 Zn2+ binding site [ion binding]; other site 323850007197 Mg2+ binding site [ion binding]; other site 323850007198 intracellular septation protein A; Reviewed; Region: PRK00259 323850007199 YciI-like protein; Reviewed; Region: PRK11370 323850007200 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 323850007201 putative catalytic site [active] 323850007202 putative phosphate binding site [ion binding]; other site 323850007203 active site 323850007204 metal binding site A [ion binding]; metal-binding site 323850007205 DNA binding site [nucleotide binding] 323850007206 putative AP binding site [nucleotide binding]; other site 323850007207 putative metal binding site B [ion binding]; other site 323850007208 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 323850007209 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850007210 dimer interface [polypeptide binding]; other site 323850007211 putative CheW interface [polypeptide binding]; other site 323850007212 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 323850007213 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 323850007214 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 323850007215 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 323850007216 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 323850007217 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 323850007218 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 323850007219 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 323850007220 catalytic loop [active] 323850007221 iron binding site [ion binding]; other site 323850007222 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 323850007223 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 323850007224 Ligand binding site; other site 323850007225 metal-binding site 323850007226 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 323850007227 XdhC Rossmann domain; Region: XdhC_C; pfam13478 323850007228 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 323850007229 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 323850007230 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 323850007231 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323850007232 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323850007233 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323850007234 AAA domain; Region: AAA_23; pfam13476 323850007235 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 323850007236 AAA domain; Region: AAA_21; pfam13304 323850007237 Walker B; other site 323850007238 D-loop; other site 323850007239 H-loop/switch region; other site 323850007240 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 323850007241 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 323850007242 putative active site [active] 323850007243 metal binding site [ion binding]; metal-binding site 323850007244 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 323850007245 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 323850007246 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 323850007247 putative dimer interface [polypeptide binding]; other site 323850007248 N-terminal domain interface [polypeptide binding]; other site 323850007249 putative substrate binding pocket (H-site) [chemical binding]; other site 323850007250 DoxX; Region: DoxX; pfam07681 323850007251 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850007252 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850007253 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 323850007254 putative effector binding pocket; other site 323850007255 dimerization interface [polypeptide binding]; other site 323850007256 chaperone protein DnaJ; Provisional; Region: PRK14280 323850007257 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 323850007258 active sites [active] 323850007259 tetramer interface [polypeptide binding]; other site 323850007260 L-aspartate oxidase; Provisional; Region: PRK06175 323850007261 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 323850007262 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 323850007263 GAF domain; Region: GAF_2; pfam13185 323850007264 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 323850007265 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 323850007266 Walker A motif; other site 323850007267 ATP binding site [chemical binding]; other site 323850007268 Walker B motif; other site 323850007269 arginine finger; other site 323850007270 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 323850007271 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 323850007272 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 323850007273 eyelet of channel; other site 323850007274 trimer interface [polypeptide binding]; other site 323850007275 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 323850007276 UDP-glucose 4-epimerase; Region: PLN02240 323850007277 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 323850007278 NAD binding site [chemical binding]; other site 323850007279 homodimer interface [polypeptide binding]; other site 323850007280 active site 323850007281 substrate binding site [chemical binding]; other site 323850007282 Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) and related proteins; solute binding domain; Region: SLC5sbd_vSGLT; cd10325 323850007283 Na binding site [ion binding]; other site 323850007284 substrate binding site [chemical binding]; other site 323850007285 galactokinase; Provisional; Region: PRK05101 323850007286 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 323850007287 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 323850007288 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 323850007289 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 323850007290 dimer interface [polypeptide binding]; other site 323850007291 active site 323850007292 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 323850007293 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 323850007294 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 323850007295 Protein of unknown function, DUF606; Region: DUF606; pfam04657 323850007296 Protein of unknown function, DUF606; Region: DUF606; pfam04657 323850007297 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850007298 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850007299 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 323850007300 putative effector binding pocket; other site 323850007301 dimerization interface [polypeptide binding]; other site 323850007302 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 323850007303 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 323850007304 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850007305 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850007306 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 323850007307 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 323850007308 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 323850007309 PEGA domain; Region: PEGA; pfam08308 323850007310 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 323850007311 DNA topoisomerase III; Provisional; Region: PRK07726 323850007312 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 323850007313 active site 323850007314 putative interdomain interaction site [polypeptide binding]; other site 323850007315 putative metal-binding site [ion binding]; other site 323850007316 putative nucleotide binding site [chemical binding]; other site 323850007317 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 323850007318 domain I; other site 323850007319 DNA binding groove [nucleotide binding] 323850007320 phosphate binding site [ion binding]; other site 323850007321 domain II; other site 323850007322 domain III; other site 323850007323 nucleotide binding site [chemical binding]; other site 323850007324 catalytic site [active] 323850007325 domain IV; other site 323850007326 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 323850007327 dimerization interface [polypeptide binding]; other site 323850007328 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323850007329 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850007330 dimer interface [polypeptide binding]; other site 323850007331 putative CheW interface [polypeptide binding]; other site 323850007332 amidophosphoribosyltransferase; Provisional; Region: PRK09246 323850007333 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 323850007334 active site 323850007335 tetramer interface [polypeptide binding]; other site 323850007336 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323850007337 active site 323850007338 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 323850007339 Colicin V production protein; Region: Colicin_V; cl00567 323850007340 cell division protein DedD; Provisional; Region: PRK11633 323850007341 Sporulation related domain; Region: SPOR; pfam05036 323850007342 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 323850007343 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323850007344 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323850007345 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 323850007346 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 323850007347 dimerization interface 3.5A [polypeptide binding]; other site 323850007348 active site 323850007349 FimV N-terminal domain; Region: FimV_core; TIGR03505 323850007350 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 323850007351 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 323850007352 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 323850007353 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 323850007354 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 323850007355 ligand binding site [chemical binding]; other site 323850007356 NAD binding site [chemical binding]; other site 323850007357 catalytic site [active] 323850007358 homodimer interface [polypeptide binding]; other site 323850007359 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 323850007360 active site 323850007361 multimer interface [polypeptide binding]; other site 323850007362 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 323850007363 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 323850007364 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 323850007365 catalytic loop [active] 323850007366 iron binding site [ion binding]; other site 323850007367 chaperone protein HscA; Provisional; Region: hscA; PRK05183 323850007368 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 323850007369 nucleotide binding site [chemical binding]; other site 323850007370 putative NEF/HSP70 interaction site [polypeptide binding]; other site 323850007371 SBD interface [polypeptide binding]; other site 323850007372 co-chaperone HscB; Provisional; Region: hscB; PRK05014 323850007373 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 323850007374 HSP70 interaction site [polypeptide binding]; other site 323850007375 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 323850007376 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 323850007377 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 323850007378 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 323850007379 trimerization site [polypeptide binding]; other site 323850007380 active site 323850007381 cysteine desulfurase; Provisional; Region: PRK14012 323850007382 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 323850007383 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323850007384 catalytic residue [active] 323850007385 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 323850007386 Rrf2 family protein; Region: rrf2_super; TIGR00738 323850007387 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 323850007388 serine O-acetyltransferase; Region: cysE; TIGR01172 323850007389 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 323850007390 trimer interface [polypeptide binding]; other site 323850007391 active site 323850007392 substrate binding site [chemical binding]; other site 323850007393 CoA binding site [chemical binding]; other site 323850007394 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 323850007395 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 323850007396 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 323850007397 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 323850007398 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 323850007399 active site 323850007400 dimerization interface [polypeptide binding]; other site 323850007401 NnrS protein; Region: NnrS; pfam05940 323850007402 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 323850007403 PilZ domain; Region: PilZ; pfam07238 323850007404 ParA-like protein; Provisional; Region: PHA02518 323850007405 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 323850007406 P-loop; other site 323850007407 Magnesium ion binding site [ion binding]; other site 323850007408 probable metal-binding protein; Region: matur_matur; TIGR03853 323850007409 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 323850007410 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 323850007411 GAF domain; Region: GAF; pfam01590 323850007412 Histidine kinase; Region: His_kinase; pfam06580 323850007413 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 323850007414 ATP binding site [chemical binding]; other site 323850007415 Mg2+ binding site [ion binding]; other site 323850007416 G-X-G motif; other site 323850007417 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 323850007418 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 323850007419 active site 323850007420 phosphorylation site [posttranslational modification] 323850007421 intermolecular recognition site; other site 323850007422 dimerization interface [polypeptide binding]; other site 323850007423 LytTr DNA-binding domain; Region: LytTR; smart00850 323850007424 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 323850007425 Carbon starvation protein CstA; Region: CstA; pfam02554 323850007426 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 323850007427 YaeQ protein; Region: YaeQ; pfam07152 323850007428 siroheme synthase, N-terminal domain; Region: cysG_Nterm; TIGR01470 323850007429 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 323850007430 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 323850007431 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 323850007432 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 323850007433 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 323850007434 Protein export membrane protein; Region: SecD_SecF; pfam02355 323850007435 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 323850007436 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 323850007437 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 323850007438 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 323850007439 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 323850007440 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 323850007441 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 323850007442 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 323850007443 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 323850007444 Protein of unknown function, DUF479; Region: DUF479; cl01203 323850007445 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 323850007446 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 323850007447 catalytic residues [active] 323850007448 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 323850007449 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 323850007450 active site 323850007451 phosphorylation site [posttranslational modification] 323850007452 intermolecular recognition site; other site 323850007453 dimerization interface [polypeptide binding]; other site 323850007454 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 323850007455 Walker A motif; other site 323850007456 ATP binding site [chemical binding]; other site 323850007457 Walker B motif; other site 323850007458 arginine finger; other site 323850007459 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323850007460 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323850007461 HAMP domain; Region: HAMP; pfam00672 323850007462 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 323850007463 ATP binding site [chemical binding]; other site 323850007464 Mg2+ binding site [ion binding]; other site 323850007465 G-X-G motif; other site 323850007466 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 323850007467 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 323850007468 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 323850007469 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323850007470 Walker A/P-loop; other site 323850007471 ATP binding site [chemical binding]; other site 323850007472 Q-loop/lid; other site 323850007473 ABC transporter signature motif; other site 323850007474 Walker B; other site 323850007475 D-loop; other site 323850007476 H-loop/switch region; other site 323850007477 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 323850007478 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 323850007479 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 323850007480 active site 323850007481 phosphorylation site [posttranslational modification] 323850007482 intermolecular recognition site; other site 323850007483 dimerization interface [polypeptide binding]; other site 323850007484 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 323850007485 DNA binding site [nucleotide binding] 323850007486 sensor protein PhoQ; Provisional; Region: PRK10815 323850007487 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 323850007488 ATP binding site [chemical binding]; other site 323850007489 Mg2+ binding site [ion binding]; other site 323850007490 G-X-G motif; other site 323850007491 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 323850007492 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 323850007493 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 323850007494 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323850007495 Zn2+ binding site [ion binding]; other site 323850007496 Mg2+ binding site [ion binding]; other site 323850007497 Protein of unknown function (DUF3135); Region: DUF3135; pfam11333 323850007498 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 323850007499 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 323850007500 Cl binding site [ion binding]; other site 323850007501 oligomer interface [polypeptide binding]; other site 323850007502 hypothetical protein; Provisional; Region: PRK03641 323850007503 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 323850007504 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 323850007505 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 323850007506 active site 323850007507 nucleophile elbow; other site 323850007508 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 323850007509 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 323850007510 active site 323850007511 motif I; other site 323850007512 motif II; other site 323850007513 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 323850007514 proline aminopeptidase P II; Provisional; Region: PRK10879 323850007515 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 323850007516 active site 323850007517 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 323850007518 putative uracil binding site [chemical binding]; other site 323850007519 putative active site [active] 323850007520 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 323850007521 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 323850007522 hydroxyglutarate oxidase; Provisional; Region: PRK11728 323850007523 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 323850007524 Proline racemase; Region: Pro_racemase; pfam05544 323850007525 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 323850007526 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 323850007527 inhibitor site; inhibition site 323850007528 active site 323850007529 dimer interface [polypeptide binding]; other site 323850007530 catalytic residue [active] 323850007531 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 323850007532 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 323850007533 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 323850007534 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 323850007535 dimer interface [polypeptide binding]; other site 323850007536 NADP binding site [chemical binding]; other site 323850007537 catalytic residues [active] 323850007538 Transcriptional regulators [Transcription]; Region: GntR; COG1802 323850007539 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 323850007540 DNA-binding site [nucleotide binding]; DNA binding site 323850007541 FCD domain; Region: FCD; pfam07729 323850007542 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 323850007543 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 323850007544 dimer interface [polypeptide binding]; other site 323850007545 active site 323850007546 CoA binding pocket [chemical binding]; other site 323850007547 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 323850007548 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 323850007549 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 323850007550 active site 323850007551 catalytic site [active] 323850007552 substrate binding site [chemical binding]; other site 323850007553 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 323850007554 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 323850007555 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 323850007556 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 323850007557 metal binding triad; other site 323850007558 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323850007559 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 323850007560 S-adenosylmethionine binding site [chemical binding]; other site 323850007561 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 323850007562 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 323850007563 Na binding site [ion binding]; other site 323850007564 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 323850007565 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 323850007566 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 323850007567 catalytic residues [active] 323850007568 hinge region; other site 323850007569 alpha helical domain; other site 323850007570 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 323850007571 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 323850007572 putative NAD(P) binding site [chemical binding]; other site 323850007573 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 323850007574 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323850007575 Zn2+ binding site [ion binding]; other site 323850007576 Mg2+ binding site [ion binding]; other site 323850007577 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 323850007578 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 323850007579 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 323850007580 nucleotide binding pocket [chemical binding]; other site 323850007581 K-X-D-G motif; other site 323850007582 catalytic site [active] 323850007583 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 323850007584 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 323850007585 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 323850007586 Dimer interface [polypeptide binding]; other site 323850007587 BRCT sequence motif; other site 323850007588 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 323850007589 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 323850007590 FtsZ protein binding site [polypeptide binding]; other site 323850007591 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 323850007592 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 323850007593 Walker A/P-loop; other site 323850007594 ATP binding site [chemical binding]; other site 323850007595 Q-loop/lid; other site 323850007596 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 323850007597 ABC transporter signature motif; other site 323850007598 Walker B; other site 323850007599 D-loop; other site 323850007600 H-loop/switch region; other site 323850007601 putative sulfate transport protein CysZ; Validated; Region: PRK04949 323850007602 RDD family; Region: RDD; pfam06271 323850007603 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 323850007604 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 323850007605 dimer interface [polypeptide binding]; other site 323850007606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850007607 catalytic residue [active] 323850007608 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323850007609 Oxygen evolving enhancer protein 3 (PsbQ); Region: PsbQ; cl05363 323850007610 O-methyltransferase; Region: Methyltransf_2; pfam00891 323850007611 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 323850007612 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 323850007613 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 323850007614 hypothetical protein; Provisional; Region: PRK11588 323850007615 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 323850007616 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 323850007617 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850007618 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 323850007619 dimerization interface [polypeptide binding]; other site 323850007620 formate transporter FocA; Region: formate_focA; TIGR04060 323850007621 FOG: CBS domain [General function prediction only]; Region: COG0517 323850007622 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 323850007623 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 323850007624 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 323850007625 Pyruvate formate lyase 1; Region: PFL1; cd01678 323850007626 coenzyme A binding site [chemical binding]; other site 323850007627 active site 323850007628 catalytic residues [active] 323850007629 glycine loop; other site 323850007630 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 323850007631 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 323850007632 FeS/SAM binding site; other site 323850007633 Protein of unknown function, DUF412; Region: DUF412; pfam04217 323850007634 propionate/acetate kinase; Provisional; Region: PRK12379 323850007635 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 323850007636 phosphate acetyltransferase; Reviewed; Region: PRK05632 323850007637 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 323850007638 DRTGG domain; Region: DRTGG; pfam07085 323850007639 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 323850007640 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 323850007641 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 323850007642 S-adenosylmethionine binding site [chemical binding]; other site 323850007643 Domain of unknown function DUF20; Region: UPF0118; pfam01594 323850007644 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 323850007645 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 323850007646 homooctamer interface [polypeptide binding]; other site 323850007647 active site 323850007648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323850007649 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 323850007650 NAD(P) binding site [chemical binding]; other site 323850007651 active site 323850007652 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 323850007653 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 323850007654 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 323850007655 Walker A/P-loop; other site 323850007656 ATP binding site [chemical binding]; other site 323850007657 Q-loop/lid; other site 323850007658 ABC transporter signature motif; other site 323850007659 Walker B; other site 323850007660 D-loop; other site 323850007661 H-loop/switch region; other site 323850007662 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 323850007663 active site 323850007664 catalytic triad [active] 323850007665 oxyanion hole [active] 323850007666 switch loop; other site 323850007667 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 323850007668 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 323850007669 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 323850007670 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 323850007671 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 323850007672 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850007673 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 323850007674 putative inner membrane peptidase; Provisional; Region: PRK11778 323850007675 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 323850007676 tandem repeat interface [polypeptide binding]; other site 323850007677 oligomer interface [polypeptide binding]; other site 323850007678 active site residues [active] 323850007679 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 323850007680 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 323850007681 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 323850007682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323850007683 NAD(P) binding site [chemical binding]; other site 323850007684 active site 323850007685 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 323850007686 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 323850007687 dimer interface [polypeptide binding]; other site 323850007688 active site 323850007689 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 323850007690 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 323850007691 YfcL protein; Region: YfcL; pfam08891 323850007692 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 323850007693 MFS_1 like family; Region: MFS_1_like; pfam12832 323850007694 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 323850007695 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 323850007696 putative substrate translocation pore; other site 323850007697 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 323850007698 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 323850007699 Tetramer interface [polypeptide binding]; other site 323850007700 active site 323850007701 FMN-binding site [chemical binding]; other site 323850007702 HemK family putative methylases; Region: hemK_fam; TIGR00536 323850007703 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 323850007704 S-adenosylmethionine binding site [chemical binding]; other site 323850007705 hypothetical protein; Provisional; Region: PRK04946 323850007706 Smr domain; Region: Smr; pfam01713 323850007707 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 323850007708 catalytic core [active] 323850007709 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 323850007710 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 323850007711 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 323850007712 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 323850007713 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 323850007714 PAS fold; Region: PAS_3; pfam08447 323850007715 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 323850007716 PAS domain; Region: PAS_9; pfam13426 323850007717 putative active site [active] 323850007718 heme pocket [chemical binding]; other site 323850007719 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850007720 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850007721 metal binding site [ion binding]; metal-binding site 323850007722 active site 323850007723 I-site; other site 323850007724 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 323850007725 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 323850007726 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 323850007727 substrate binding site [chemical binding]; other site 323850007728 oxyanion hole (OAH) forming residues; other site 323850007729 trimer interface [polypeptide binding]; other site 323850007730 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 323850007731 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 323850007732 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 323850007733 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 323850007734 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 323850007735 dimer interface [polypeptide binding]; other site 323850007736 active site 323850007737 MoxR-like ATPases [General function prediction only]; Region: COG0714 323850007738 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 323850007739 Walker A motif; other site 323850007740 ATP binding site [chemical binding]; other site 323850007741 Walker B motif; other site 323850007742 arginine finger; other site 323850007743 Protein of unknown function DUF58; Region: DUF58; pfam01882 323850007744 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 323850007745 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 323850007746 metal ion-dependent adhesion site (MIDAS); other site 323850007747 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 323850007748 metal ion-dependent adhesion site (MIDAS); other site 323850007749 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 323850007750 binding surface 323850007751 TPR motif; other site 323850007752 Tetratricopeptide repeat; Region: TPR_16; pfam13432 323850007753 Oxygen tolerance; Region: BatD; pfam13584 323850007754 RNA polymerase sigma factor; Provisional; Region: PRK12517 323850007755 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323850007756 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 323850007757 DNA binding residues [nucleotide binding] 323850007758 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 323850007759 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 323850007760 Na binding site [ion binding]; other site 323850007761 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 323850007762 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 323850007763 active site 323850007764 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 323850007765 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323850007766 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850007767 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323850007768 Protein export membrane protein; Region: SecD_SecF; cl14618 323850007769 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 323850007770 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 323850007771 active site residue [active] 323850007772 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 323850007773 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 323850007774 active site 323850007775 catalytic residues [active] 323850007776 PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from...; Region: PA_VapT_like; cd04817 323850007777 PA/subtilisin-like domain interface [polypeptide binding]; other site 323850007778 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 323850007779 catalytic residues [active] 323850007780 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 323850007781 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 323850007782 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 323850007783 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 323850007784 dimerization interface [polypeptide binding]; other site 323850007785 active site 323850007786 hypothetical protein; Provisional; Region: PRK11020 323850007787 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 323850007788 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 323850007789 FeS/SAM binding site; other site 323850007790 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 323850007791 ATP cone domain; Region: ATP-cone; pfam03477 323850007792 Class III ribonucleotide reductase; Region: RNR_III; cd01675 323850007793 effector binding site; other site 323850007794 active site 323850007795 Zn binding site [ion binding]; other site 323850007796 glycine loop; other site 323850007797 hypothetical protein; Provisional; Region: PRK10279 323850007798 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 323850007799 active site 323850007800 nucleophile elbow; other site 323850007801 helicase 45; Provisional; Region: PTZ00424 323850007802 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 323850007803 ATP binding site [chemical binding]; other site 323850007804 Mg++ binding site [ion binding]; other site 323850007805 motif III; other site 323850007806 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 323850007807 nucleotide binding region [chemical binding]; other site 323850007808 ATP-binding site [chemical binding]; other site 323850007809 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 323850007810 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 323850007811 putative peptidase; Provisional; Region: PRK11649 323850007812 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 323850007813 Peptidase family M23; Region: Peptidase_M23; pfam01551 323850007814 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 323850007815 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 323850007816 Walker A/P-loop; other site 323850007817 ATP binding site [chemical binding]; other site 323850007818 Q-loop/lid; other site 323850007819 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 323850007820 ABC transporter signature motif; other site 323850007821 Walker B; other site 323850007822 D-loop; other site 323850007823 H-loop/switch region; other site 323850007824 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 323850007825 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 323850007826 active site 323850007827 metal binding site [ion binding]; metal-binding site 323850007828 DNA binding site [nucleotide binding] 323850007829 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 323850007830 putative S-transferase; Provisional; Region: PRK11752 323850007831 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 323850007832 C-terminal domain interface [polypeptide binding]; other site 323850007833 GSH binding site (G-site) [chemical binding]; other site 323850007834 dimer interface [polypeptide binding]; other site 323850007835 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 323850007836 dimer interface [polypeptide binding]; other site 323850007837 N-terminal domain interface [polypeptide binding]; other site 323850007838 active site 323850007839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 323850007840 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 323850007841 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 323850007842 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 323850007843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 323850007844 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 323850007845 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 323850007846 hypothetical protein; Provisional; Region: PRK10621 323850007847 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 323850007848 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 323850007849 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850007850 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 323850007851 dimerization interface [polypeptide binding]; other site 323850007852 Nuclease-related domain; Region: NERD; pfam08378 323850007853 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 323850007854 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 323850007855 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 323850007856 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 323850007857 RNA binding surface [nucleotide binding]; other site 323850007858 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 323850007859 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 323850007860 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 323850007861 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 323850007862 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850007863 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850007864 metal binding site [ion binding]; metal-binding site 323850007865 active site 323850007866 I-site; other site 323850007867 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 323850007868 TPR motif; other site 323850007869 binding surface 323850007870 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 323850007871 TPR motif; other site 323850007872 binding surface 323850007873 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 323850007874 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 323850007875 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 323850007876 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 323850007877 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 323850007878 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 323850007879 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 323850007880 S-adenosylmethionine binding site [chemical binding]; other site 323850007881 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 323850007882 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 323850007883 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 323850007884 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 323850007885 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 323850007886 trimer interface [polypeptide binding]; other site 323850007887 eyelet of channel; other site 323850007888 DNA polymerase II; Reviewed; Region: PRK05762 323850007889 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 323850007890 active site 323850007891 catalytic site [active] 323850007892 substrate binding site [chemical binding]; other site 323850007893 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 323850007894 active site 323850007895 metal-binding site 323850007896 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 323850007897 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 323850007898 hypothetical protein; Provisional; Region: PRK10621 323850007899 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 323850007900 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 323850007901 hypothetical protein; Provisional; Region: PRK03641 323850007902 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 323850007903 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 323850007904 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 323850007905 putative active site [active] 323850007906 Zn binding site [ion binding]; other site 323850007907 Late competence development protein ComFB; Region: ComFB; pfam10719 323850007908 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 323850007909 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 323850007910 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 323850007911 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 323850007912 transmembrane helices; other site 323850007913 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 323850007914 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 323850007915 homodimer interface [polypeptide binding]; other site 323850007916 substrate-cofactor binding pocket; other site 323850007917 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850007918 catalytic residue [active] 323850007919 hypothetical protein; Provisional; Region: PRK05415 323850007920 Domain of unknown function (DUF697); Region: DUF697; cl12064 323850007921 YcjX-like family, DUF463; Region: DUF463; pfam04317 323850007922 PspC domain; Region: PspC; cl00864 323850007923 phage shock protein C; Region: phageshock_pspC; TIGR02978 323850007924 phage shock protein B; Provisional; Region: pspB; PRK09458 323850007925 phage shock protein A; Region: phageshock_pspA; TIGR02977 323850007926 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 323850007927 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 323850007928 Walker A motif; other site 323850007929 ATP binding site [chemical binding]; other site 323850007930 Walker B motif; other site 323850007931 arginine finger; other site 323850007932 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 323850007933 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 323850007934 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 323850007935 peptide binding site [polypeptide binding]; other site 323850007936 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 323850007937 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323850007938 dimer interface [polypeptide binding]; other site 323850007939 conserved gate region; other site 323850007940 putative PBP binding loops; other site 323850007941 ABC-ATPase subunit interface; other site 323850007942 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 323850007943 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323850007944 dimer interface [polypeptide binding]; other site 323850007945 conserved gate region; other site 323850007946 putative PBP binding loops; other site 323850007947 ABC-ATPase subunit interface; other site 323850007948 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 323850007949 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 323850007950 Walker A/P-loop; other site 323850007951 ATP binding site [chemical binding]; other site 323850007952 Q-loop/lid; other site 323850007953 ABC transporter signature motif; other site 323850007954 Walker B; other site 323850007955 D-loop; other site 323850007956 H-loop/switch region; other site 323850007957 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 323850007958 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 323850007959 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 323850007960 Walker A/P-loop; other site 323850007961 ATP binding site [chemical binding]; other site 323850007962 Q-loop/lid; other site 323850007963 ABC transporter signature motif; other site 323850007964 Walker B; other site 323850007965 D-loop; other site 323850007966 H-loop/switch region; other site 323850007967 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 323850007968 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 323850007969 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 323850007970 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 323850007971 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 323850007972 periplasmic folding chaperone; Provisional; Region: PRK10788 323850007973 SurA N-terminal domain; Region: SurA_N_3; cl07813 323850007974 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 323850007975 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 323850007976 IHF dimer interface [polypeptide binding]; other site 323850007977 IHF - DNA interface [nucleotide binding]; other site 323850007978 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 323850007979 Found in ATP-dependent protease La (LON); Region: LON; smart00464 323850007980 Found in ATP-dependent protease La (LON); Region: LON; smart00464 323850007981 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 323850007982 Walker A motif; other site 323850007983 ATP binding site [chemical binding]; other site 323850007984 Walker B motif; other site 323850007985 arginine finger; other site 323850007986 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 323850007987 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 323850007988 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 323850007989 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 323850007990 Walker A motif; other site 323850007991 ATP binding site [chemical binding]; other site 323850007992 Walker B motif; other site 323850007993 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 323850007994 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 323850007995 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 323850007996 oligomer interface [polypeptide binding]; other site 323850007997 active site residues [active] 323850007998 trigger factor; Provisional; Region: tig; PRK01490 323850007999 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 323850008000 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 323850008001 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 323850008002 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 323850008003 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 323850008004 homodimer interface [polypeptide binding]; other site 323850008005 NADP binding site [chemical binding]; other site 323850008006 substrate binding site [chemical binding]; other site 323850008007 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 323850008008 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 323850008009 active site 323850008010 HIGH motif; other site 323850008011 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 323850008012 KMSKS motif; other site 323850008013 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 323850008014 tRNA binding surface [nucleotide binding]; other site 323850008015 anticodon binding site; other site 323850008016 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 323850008017 substrate binding site [chemical binding]; other site 323850008018 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 323850008019 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 323850008020 putative active site [active] 323850008021 putative metal binding site [ion binding]; other site 323850008022 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 323850008023 active site 323850008024 dinuclear metal binding site [ion binding]; other site 323850008025 dimerization interface [polypeptide binding]; other site 323850008026 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 323850008027 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 323850008028 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323850008029 active site 323850008030 HIGH motif; other site 323850008031 nucleotide binding site [chemical binding]; other site 323850008032 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 323850008033 KMSKS motif; other site 323850008034 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 323850008035 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 323850008036 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 323850008037 G1 box; other site 323850008038 GTP/Mg2+ binding site [chemical binding]; other site 323850008039 Switch I region; other site 323850008040 G2 box; other site 323850008041 G3 box; other site 323850008042 Switch II region; other site 323850008043 G4 box; other site 323850008044 G5 box; other site 323850008045 Nucleoside recognition; Region: Gate; pfam07670 323850008046 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 323850008047 Nucleoside recognition; Region: Gate; pfam07670 323850008048 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; cl00474 323850008049 FeoA domain; Region: FeoA; pfam04023 323850008050 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 323850008051 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 323850008052 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 323850008053 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 323850008054 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 323850008055 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 323850008056 heme-binding residues [chemical binding]; other site 323850008057 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 323850008058 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 323850008059 heme-binding residues [chemical binding]; other site 323850008060 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 323850008061 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 323850008062 heme-binding residues [chemical binding]; other site 323850008063 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 323850008064 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 323850008065 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 323850008066 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 323850008067 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 323850008068 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 323850008069 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 323850008070 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 323850008071 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 323850008072 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 323850008073 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 323850008074 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 323850008075 active site 323850008076 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 323850008077 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 323850008078 gating phenylalanine in ion channel; other site 323850008079 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 323850008080 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850008081 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 323850008082 putative dimerization interface [polypeptide binding]; other site 323850008083 Peptidase C26; Region: Peptidase_C26; pfam07722 323850008084 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 323850008085 catalytic triad [active] 323850008086 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 323850008087 fructuronate transporter; Provisional; Region: PRK10034; cl15264 323850008088 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 323850008089 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 323850008090 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323850008091 catalytic residue [active] 323850008092 Protein of unknown function, DUF393; Region: DUF393; pfam04134 323850008093 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 323850008094 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 323850008095 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850008096 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850008097 AzlC protein; Region: AzlC; pfam03591 323850008098 Predicted membrane protein [Function unknown]; Region: COG4392 323850008099 NIPSNAP; Region: NIPSNAP; pfam07978 323850008100 Predicted transcriptional regulator [Transcription]; Region: COG2378 323850008101 HTH domain; Region: HTH_11; pfam08279 323850008102 WYL domain; Region: WYL; pfam13280 323850008103 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 323850008104 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 323850008105 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323850008106 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 323850008107 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 323850008108 active site 323850008109 substrate binding site [chemical binding]; other site 323850008110 metal binding site [ion binding]; metal-binding site 323850008111 PAS fold; Region: PAS_4; pfam08448 323850008112 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850008113 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850008114 metal binding site [ion binding]; metal-binding site 323850008115 active site 323850008116 I-site; other site 323850008117 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323850008118 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 323850008119 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 323850008120 active site 323850008121 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 323850008122 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 323850008123 TrkA-N domain; Region: TrkA_N; pfam02254 323850008124 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 323850008125 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 323850008126 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850008127 Coenzyme A binding pocket [chemical binding]; other site 323850008128 homoserine O-succinyltransferase; Provisional; Region: PRK05368 323850008129 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 323850008130 proposed active site lysine [active] 323850008131 conserved cys residue [active] 323850008132 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 323850008133 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 323850008134 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323850008135 NAD(P) binding site [chemical binding]; other site 323850008136 active site 323850008137 outer membrane protein W; Provisional; Region: PRK10959 323850008138 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 323850008139 acyl-CoA thioesterase II; Provisional; Region: PRK10526 323850008140 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 323850008141 active site 323850008142 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 323850008143 catalytic triad [active] 323850008144 dimer interface [polypeptide binding]; other site 323850008145 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323850008146 NAD(P) binding site [chemical binding]; other site 323850008147 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 323850008148 active site 323850008149 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 323850008150 UbiA prenyltransferase family; Region: UbiA; pfam01040 323850008151 malate synthase; Provisional; Region: PRK08951 323850008152 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 323850008153 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 323850008154 non-specific DNA binding site [nucleotide binding]; other site 323850008155 salt bridge; other site 323850008156 sequence-specific DNA binding site [nucleotide binding]; other site 323850008157 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 323850008158 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 323850008159 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 323850008160 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 323850008161 MarR family; Region: MarR_2; cl17246 323850008162 Prostaglandin dehydrogenases; Region: PGDH; cd05288 323850008163 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 323850008164 NAD(P) binding site [chemical binding]; other site 323850008165 substrate binding site [chemical binding]; other site 323850008166 dimer interface [polypeptide binding]; other site 323850008167 MltA-interacting protein MipA; Region: MipA; cl01504 323850008168 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 323850008169 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 323850008170 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 323850008171 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 323850008172 acyl-activating enzyme (AAE) consensus motif; other site 323850008173 putative AMP binding site [chemical binding]; other site 323850008174 putative active site [active] 323850008175 putative CoA binding site [chemical binding]; other site 323850008176 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 323850008177 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 323850008178 DNA binding residues [nucleotide binding] 323850008179 putative dimer interface [polypeptide binding]; other site 323850008180 isovaleryl-CoA dehydrogenase; Region: PLN02519 323850008181 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 323850008182 substrate binding site [chemical binding]; other site 323850008183 FAD binding site [chemical binding]; other site 323850008184 catalytic base [active] 323850008185 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 323850008186 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 323850008187 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 323850008188 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 323850008189 substrate binding site [chemical binding]; other site 323850008190 oxyanion hole (OAH) forming residues; other site 323850008191 trimer interface [polypeptide binding]; other site 323850008192 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 323850008193 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323850008194 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 323850008195 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 323850008196 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 323850008197 carboxyltransferase (CT) interaction site; other site 323850008198 biotinylation site [posttranslational modification]; other site 323850008199 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 323850008200 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 323850008201 active site 323850008202 catalytic residues [active] 323850008203 metal binding site [ion binding]; metal-binding site 323850008204 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 323850008205 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 323850008206 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 323850008207 PAS fold; Region: PAS_3; pfam08447 323850008208 putative active site [active] 323850008209 heme pocket [chemical binding]; other site 323850008210 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 323850008211 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850008212 dimer interface [polypeptide binding]; other site 323850008213 putative CheW interface [polypeptide binding]; other site 323850008214 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323850008215 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 323850008216 substrate binding pocket [chemical binding]; other site 323850008217 membrane-bound complex binding site; other site 323850008218 hinge residues; other site 323850008219 thymidine kinase; Provisional; Region: PRK04296 323850008220 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 323850008221 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 323850008222 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 323850008223 active site 323850008224 Zn binding site [ion binding]; other site 323850008225 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 323850008226 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 323850008227 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 323850008228 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 323850008229 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 323850008230 Ligand binding site [chemical binding]; other site 323850008231 Electron transfer flavoprotein domain; Region: ETF; pfam01012 323850008232 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 323850008233 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 323850008234 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 323850008235 active site 323850008236 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 323850008237 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 323850008238 active site 323850008239 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 323850008240 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 323850008241 active site 323850008242 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 323850008243 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 323850008244 homodimer interaction site [polypeptide binding]; other site 323850008245 cofactor binding site; other site 323850008246 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 323850008247 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 323850008248 trimer interface [polypeptide binding]; other site 323850008249 active site 323850008250 substrate binding site [chemical binding]; other site 323850008251 CoA binding site [chemical binding]; other site 323850008252 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 323850008253 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 323850008254 PA/protease or protease-like domain interface [polypeptide binding]; other site 323850008255 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 323850008256 Peptidase family M28; Region: Peptidase_M28; pfam04389 323850008257 metal binding site [ion binding]; metal-binding site 323850008258 AMP-binding domain protein; Validated; Region: PRK08315 323850008259 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 323850008260 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 323850008261 acyl-activating enzyme (AAE) consensus motif; other site 323850008262 putative AMP binding site [chemical binding]; other site 323850008263 putative active site [active] 323850008264 putative CoA binding site [chemical binding]; other site 323850008265 hypothetical protein; Provisional; Region: PRK10039 323850008266 prolyl-tRNA synthetase; Provisional; Region: PRK09194 323850008267 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 323850008268 dimer interface [polypeptide binding]; other site 323850008269 motif 1; other site 323850008270 active site 323850008271 motif 2; other site 323850008272 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 323850008273 putative deacylase active site [active] 323850008274 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 323850008275 active site 323850008276 motif 3; other site 323850008277 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 323850008278 anticodon binding site; other site 323850008279 SnoaL-like domain; Region: SnoaL_3; pfam13474 323850008280 Predicted transcriptional regulators [Transcription]; Region: COG1733 323850008281 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 323850008282 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG4551 323850008283 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 323850008284 active site 323850008285 Restriction endonuclease; Region: Mrr_cat; pfam04471 323850008286 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 323850008287 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 323850008288 acyl-activating enzyme (AAE) consensus motif; other site 323850008289 active site 323850008290 AMP binding site [chemical binding]; other site 323850008291 CoA binding site [chemical binding]; other site 323850008292 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 323850008293 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 323850008294 Walker A/P-loop; other site 323850008295 ATP binding site [chemical binding]; other site 323850008296 Q-loop/lid; other site 323850008297 ABC transporter signature motif; other site 323850008298 Walker B; other site 323850008299 D-loop; other site 323850008300 H-loop/switch region; other site 323850008301 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 323850008302 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 323850008303 putative ligand binding site [chemical binding]; other site 323850008304 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 323850008305 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 323850008306 TM-ABC transporter signature motif; other site 323850008307 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 323850008308 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 323850008309 TM-ABC transporter signature motif; other site 323850008310 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 323850008311 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 323850008312 acyl-activating enzyme (AAE) consensus motif; other site 323850008313 putative AMP binding site [chemical binding]; other site 323850008314 putative active site [active] 323850008315 putative CoA binding site [chemical binding]; other site 323850008316 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 323850008317 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 323850008318 Walker A/P-loop; other site 323850008319 ATP binding site [chemical binding]; other site 323850008320 Q-loop/lid; other site 323850008321 ABC transporter signature motif; other site 323850008322 Walker B; other site 323850008323 D-loop; other site 323850008324 H-loop/switch region; other site 323850008325 Porin subfamily; Region: Porin_2; pfam02530 323850008326 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 323850008327 Na binding site [ion binding]; other site 323850008328 PAS fold; Region: PAS_7; pfam12860 323850008329 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323850008330 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 323850008331 dimer interface [polypeptide binding]; other site 323850008332 phosphorylation site [posttranslational modification] 323850008333 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 323850008334 ATP binding site [chemical binding]; other site 323850008335 Mg2+ binding site [ion binding]; other site 323850008336 G-X-G motif; other site 323850008337 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323850008338 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 323850008339 active site 323850008340 phosphorylation site [posttranslational modification] 323850008341 intermolecular recognition site; other site 323850008342 dimerization interface [polypeptide binding]; other site 323850008343 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 323850008344 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 323850008345 active site 323850008346 phosphorylation site [posttranslational modification] 323850008347 intermolecular recognition site; other site 323850008348 dimerization interface [polypeptide binding]; other site 323850008349 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 323850008350 DNA binding residues [nucleotide binding] 323850008351 dimerization interface [polypeptide binding]; other site 323850008352 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 323850008353 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 323850008354 nucleophile elbow; other site 323850008355 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 323850008356 active site 323850008357 catalytic triad [active] 323850008358 oxyanion hole [active] 323850008359 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 323850008360 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 323850008361 TrkA-N domain; Region: TrkA_N; pfam02254 323850008362 TrkA-C domain; Region: TrkA_C; pfam02080 323850008363 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850008364 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850008365 metal binding site [ion binding]; metal-binding site 323850008366 active site 323850008367 I-site; other site 323850008368 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 323850008369 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 323850008370 Ligand Binding Site [chemical binding]; other site 323850008371 TilS substrate binding domain; Region: TilS; pfam09179 323850008372 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 323850008373 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 323850008374 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 323850008375 putative active site [active] 323850008376 putative PHP Thumb interface [polypeptide binding]; other site 323850008377 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 323850008378 generic binding surface II; other site 323850008379 generic binding surface I; other site 323850008380 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 323850008381 RNA/DNA hybrid binding site [nucleotide binding]; other site 323850008382 active site 323850008383 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 323850008384 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 323850008385 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 323850008386 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 323850008387 active site 323850008388 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 323850008389 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 323850008390 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 323850008391 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 323850008392 trimer interface [polypeptide binding]; other site 323850008393 active site 323850008394 UDP-GlcNAc binding site [chemical binding]; other site 323850008395 lipid binding site [chemical binding]; lipid-binding site 323850008396 periplasmic chaperone; Provisional; Region: PRK10780 323850008397 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 323850008398 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 323850008399 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323850008400 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323850008401 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323850008402 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323850008403 Surface antigen; Region: Bac_surface_Ag; pfam01103 323850008404 zinc metallopeptidase RseP; Provisional; Region: PRK10779 323850008405 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 323850008406 active site 323850008407 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 323850008408 protein binding site [polypeptide binding]; other site 323850008409 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 323850008410 protein binding site [polypeptide binding]; other site 323850008411 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 323850008412 putative substrate binding region [chemical binding]; other site 323850008413 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 323850008414 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 323850008415 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 323850008416 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 323850008417 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 323850008418 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 323850008419 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 323850008420 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; cd00475 323850008421 catalytic residue [active] 323850008422 putative FPP diphosphate binding site; other site 323850008423 putative FPP binding hydrophobic cleft; other site 323850008424 dimer interface [polypeptide binding]; other site 323850008425 putative IPP diphosphate binding site; other site 323850008426 ribosome recycling factor; Reviewed; Region: frr; PRK00083 323850008427 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 323850008428 hinge region; other site 323850008429 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 323850008430 putative nucleotide binding site [chemical binding]; other site 323850008431 uridine monophosphate binding site [chemical binding]; other site 323850008432 homohexameric interface [polypeptide binding]; other site 323850008433 elongation factor Ts; Provisional; Region: tsf; PRK09377 323850008434 UBA/TS-N domain; Region: UBA; pfam00627 323850008435 Elongation factor TS; Region: EF_TS; pfam00889 323850008436 Elongation factor TS; Region: EF_TS; pfam00889 323850008437 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 323850008438 rRNA interaction site [nucleotide binding]; other site 323850008439 S8 interaction site; other site 323850008440 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 323850008441 active site 323850008442 PII uridylyl-transferase; Provisional; Region: PRK05007 323850008443 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 323850008444 metal binding triad; other site 323850008445 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 323850008446 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323850008447 Zn2+ binding site [ion binding]; other site 323850008448 Mg2+ binding site [ion binding]; other site 323850008449 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 323850008450 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 323850008451 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 323850008452 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 323850008453 trimer interface [polypeptide binding]; other site 323850008454 active site 323850008455 substrate binding site [chemical binding]; other site 323850008456 CoA binding site [chemical binding]; other site 323850008457 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 323850008458 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 323850008459 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 323850008460 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 323850008461 putative substrate binding site [chemical binding]; other site 323850008462 putative active site [active] 323850008463 putative cosubstrate binding site; other site 323850008464 catalytic site [active] 323850008465 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 323850008466 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 323850008467 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 323850008468 active site turn [active] 323850008469 phosphorylation site [posttranslational modification] 323850008470 flavodoxin; Provisional; Region: PRK08105 323850008471 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 323850008472 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 323850008473 probable active site [active] 323850008474 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 323850008475 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 323850008476 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 323850008477 Protein of unknown function (DUF962); Region: DUF962; pfam06127 323850008478 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 323850008479 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 323850008480 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 323850008481 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 323850008482 SecY interacting protein Syd; Provisional; Region: PRK04968 323850008483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 323850008484 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 323850008485 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 323850008486 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 323850008487 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 323850008488 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323850008489 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 323850008490 Walker A/P-loop; other site 323850008491 ATP binding site [chemical binding]; other site 323850008492 Q-loop/lid; other site 323850008493 ABC transporter signature motif; other site 323850008494 Walker B; other site 323850008495 D-loop; other site 323850008496 H-loop/switch region; other site 323850008497 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323850008498 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 323850008499 FtsX-like permease family; Region: FtsX; pfam02687 323850008500 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323850008501 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 323850008502 FtsX-like permease family; Region: FtsX; pfam02687 323850008503 Cupin domain; Region: Cupin_2; cl17218 323850008504 elongation factor G; Reviewed; Region: PRK13351 323850008505 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 323850008506 G1 box; other site 323850008507 putative GEF interaction site [polypeptide binding]; other site 323850008508 GTP/Mg2+ binding site [chemical binding]; other site 323850008509 Switch I region; other site 323850008510 G2 box; other site 323850008511 G3 box; other site 323850008512 Switch II region; other site 323850008513 G4 box; other site 323850008514 G5 box; other site 323850008515 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 323850008516 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 323850008517 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 323850008518 Winged helix-turn helix; Region: HTH_29; pfam13551 323850008519 Homeodomain-like domain; Region: HTH_23; pfam13384 323850008520 polyketide-type polyunsaturated fatty acid synthase PfaA; Region: omega_3_PfaA; TIGR02813 323850008521 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 323850008522 active site 323850008523 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 323850008524 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 323850008525 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 323850008526 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 323850008527 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 323850008528 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 323850008529 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 323850008530 putative NADP binding site [chemical binding]; other site 323850008531 active site 323850008532 Acyl transferase domain; Region: Acyl_transf_1; cl08282 323850008533 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 323850008534 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 323850008535 active site 323850008536 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 323850008537 active site 323850008538 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 323850008539 active site 2 [active] 323850008540 dimer interface [polypeptide binding]; other site 323850008541 active site 1 [active] 323850008542 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 323850008543 active site 1 [active] 323850008544 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 323850008545 active site 1 [active] 323850008546 dimer interface [polypeptide binding]; other site 323850008547 active site 2 [active] 323850008548 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 323850008549 FMN binding site [chemical binding]; other site 323850008550 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 323850008551 substrate binding site [chemical binding]; other site 323850008552 putative catalytic residue [active] 323850008553 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 323850008554 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 323850008555 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 323850008556 active site 323850008557 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 323850008558 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850008559 LysR substrate binding domain; Region: LysR_substrate; pfam03466 323850008560 dimerization interface [polypeptide binding]; other site 323850008561 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 323850008562 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323850008563 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 323850008564 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 323850008565 substrate binding site [chemical binding]; other site 323850008566 oxyanion hole (OAH) forming residues; other site 323850008567 trimer interface [polypeptide binding]; other site 323850008568 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 323850008569 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 323850008570 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 323850008571 acyl-activating enzyme (AAE) consensus motif; other site 323850008572 acyl-activating enzyme (AAE) consensus motif; other site 323850008573 putative AMP binding site [chemical binding]; other site 323850008574 putative active site [active] 323850008575 putative CoA binding site [chemical binding]; other site 323850008576 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 323850008577 CoA-transferase family III; Region: CoA_transf_3; pfam02515 323850008578 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 323850008579 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 323850008580 active site 323850008581 L-carnitine/gamma-butyrobetaine antiporter; Provisional; Region: PRK03356 323850008582 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 323850008583 Ligand binding site [chemical binding]; other site 323850008584 Electron transfer flavoprotein domain; Region: ETF; pfam01012 323850008585 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 323850008586 Electron transfer flavoprotein domain; Region: ETF; smart00893 323850008587 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 323850008588 putative oxidoreductase FixC; Provisional; Region: PRK10157 323850008589 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 323850008590 ferredoxin-like protein FixX; Provisional; Region: PRK15449 323850008591 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 323850008592 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 323850008593 putative substrate translocation pore; other site 323850008594 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 323850008595 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 323850008596 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 323850008597 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 323850008598 metal binding site [ion binding]; metal-binding site 323850008599 putative dimer interface [polypeptide binding]; other site 323850008600 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 323850008601 sulfotransferase; Region: PLN02164 323850008602 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 323850008603 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 323850008604 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 323850008605 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 323850008606 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 323850008607 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 323850008608 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323850008609 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 323850008610 active site 323850008611 phosphorylation site [posttranslational modification] 323850008612 intermolecular recognition site; other site 323850008613 dimerization interface [polypeptide binding]; other site 323850008614 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 323850008615 DNA binding site [nucleotide binding] 323850008616 sensor protein PhoQ; Provisional; Region: PRK10815 323850008617 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 323850008618 ATP binding site [chemical binding]; other site 323850008619 Mg2+ binding site [ion binding]; other site 323850008620 G-X-G motif; other site 323850008621 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 323850008622 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 323850008623 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 323850008624 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 323850008625 ligand binding site [chemical binding]; other site 323850008626 Uncharacterized conserved protein [Function unknown]; Region: COG1359 323850008627 Zinc-dependent metalloprotease, pappalysin_like subfamily. The pregnancy-associated plasma protein A (PAPP-A or pappalysin-1) cleaves insulin-like growth factor-binding proteins 4 and 5, thereby promoting cell growth by releasing bound growth factor; Region: ZnMc_pappalysin_like; cd04275 323850008628 active site 323850008629 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 323850008630 Sel1-like repeats; Region: SEL1; smart00671 323850008631 Sel1-like repeats; Region: SEL1; smart00671 323850008632 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323850008633 Sel1-like repeats; Region: SEL1; smart00671 323850008634 Sel1-like repeats; Region: SEL1; smart00671 323850008635 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323850008636 Sel1-like repeats; Region: SEL1; smart00671 323850008637 Sel1-like repeats; Region: SEL1; smart00671 323850008638 Sel1-like repeats; Region: SEL1; smart00671 323850008639 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 323850008640 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 323850008641 catalytic loop [active] 323850008642 iron binding site [ion binding]; other site 323850008643 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 323850008644 FAD binding pocket [chemical binding]; other site 323850008645 FAD binding motif [chemical binding]; other site 323850008646 phosphate binding motif [ion binding]; other site 323850008647 beta-alpha-beta structure motif; other site 323850008648 NAD binding pocket [chemical binding]; other site 323850008649 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 323850008650 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 323850008651 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 323850008652 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 323850008653 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 323850008654 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 323850008655 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 323850008656 E3 interaction surface; other site 323850008657 lipoyl attachment site [posttranslational modification]; other site 323850008658 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 323850008659 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 323850008660 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 323850008661 homodimer interface [polypeptide binding]; other site 323850008662 substrate-cofactor binding pocket; other site 323850008663 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850008664 catalytic residue [active] 323850008665 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 323850008666 Helix-turn-helix domain; Region: HTH_18; pfam12833 323850008667 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850008668 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 323850008669 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 323850008670 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 323850008671 GAF domain; Region: GAF; cl17456 323850008672 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 323850008673 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323850008674 Zn2+ binding site [ion binding]; other site 323850008675 Mg2+ binding site [ion binding]; other site 323850008676 Protein of unknown function, DUF599; Region: DUF599; pfam04654 323850008677 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 323850008678 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 323850008679 Active site serine [active] 323850008680 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 323850008681 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 323850008682 N-terminal plug; other site 323850008683 ligand-binding site [chemical binding]; other site 323850008684 hypothetical protein; Provisional; Region: PRK11038 323850008685 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 323850008686 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 323850008687 active site 323850008688 catalytic residues [active] 323850008689 PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from...; Region: PA_VapT_like; cd04817 323850008690 PA/subtilisin-like domain interface [polypeptide binding]; other site 323850008691 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 323850008692 catalytic residues [active] 323850008693 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 323850008694 Family of unknown function (DUF633); Region: DUF633; pfam04816 323850008695 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_27; cd04686 323850008696 nudix motif; other site 323850008697 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 323850008698 putative kinase; Provisional; Region: PRK09954 323850008699 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 323850008700 putative DNA binding site [nucleotide binding]; other site 323850008701 putative Zn2+ binding site [ion binding]; other site 323850008702 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 323850008703 substrate binding site [chemical binding]; other site 323850008704 ATP binding site [chemical binding]; other site 323850008705 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 323850008706 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 323850008707 SPFH domain / Band 7 family; Region: Band_7; pfam01145 323850008708 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 323850008709 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323850008710 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323850008711 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 323850008712 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 323850008713 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 323850008714 putative N-terminal domain interface [polypeptide binding]; other site 323850008715 putative dimer interface [polypeptide binding]; other site 323850008716 putative substrate binding pocket (H-site) [chemical binding]; other site 323850008717 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 323850008718 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850008719 Coenzyme A binding pocket [chemical binding]; other site 323850008720 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 323850008721 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 323850008722 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 323850008723 active site 323850008724 nucleophile elbow; other site 323850008725 Transcriptional regulators [Transcription]; Region: MarR; COG1846 323850008726 MarR family; Region: MarR_2; pfam12802 323850008727 MarR family; Region: MarR_2; cl17246 323850008728 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 323850008729 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850008730 Uncharacterized conserved protein [Function unknown]; Region: COG2128 323850008731 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 323850008732 16S rRNA methyltransferase B; Provisional; Region: PRK10901 323850008733 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 323850008734 S-adenosylmethionine binding site [chemical binding]; other site 323850008735 YfaZ precursor; Region: YfaZ; pfam07437 323850008736 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 323850008737 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 323850008738 catalytic residues [active] 323850008739 dimer interface [polypeptide binding]; other site 323850008740 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 323850008741 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 323850008742 active site 323850008743 Zn binding site [ion binding]; other site 323850008744 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 323850008745 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 323850008746 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 323850008747 PBP superfamily domain; Region: PBP_like_2; cl17296 323850008748 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 323850008749 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 323850008750 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 323850008751 putative active site [active] 323850008752 heme pocket [chemical binding]; other site 323850008753 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 323850008754 dimer interface [polypeptide binding]; other site 323850008755 phosphorylation site [posttranslational modification] 323850008756 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 323850008757 ATP binding site [chemical binding]; other site 323850008758 Mg2+ binding site [ion binding]; other site 323850008759 G-X-G motif; other site 323850008760 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 323850008761 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 323850008762 active site 323850008763 phosphorylation site [posttranslational modification] 323850008764 intermolecular recognition site; other site 323850008765 dimerization interface [polypeptide binding]; other site 323850008766 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 323850008767 DNA binding site [nucleotide binding] 323850008768 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 323850008769 trimer interface [polypeptide binding]; other site 323850008770 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 323850008771 eyelet of channel; other site 323850008772 recombination associated protein; Reviewed; Region: rdgC; PRK00321 323850008773 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 323850008774 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 323850008775 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 323850008776 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 323850008777 TPR motif; other site 323850008778 binding surface 323850008779 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323850008780 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 323850008781 TPR motif; other site 323850008782 binding surface 323850008783 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323850008784 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850008785 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850008786 metal binding site [ion binding]; metal-binding site 323850008787 active site 323850008788 I-site; other site 323850008789 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 323850008790 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 323850008791 flap endonuclease-like protein; Provisional; Region: PRK09482 323850008792 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 323850008793 active site 323850008794 metal binding site 1 [ion binding]; metal-binding site 323850008795 putative 5' ssDNA interaction site; other site 323850008796 metal binding site 3; metal-binding site 323850008797 metal binding site 2 [ion binding]; metal-binding site 323850008798 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 323850008799 putative DNA binding site [nucleotide binding]; other site 323850008800 putative metal binding site [ion binding]; other site 323850008801 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 323850008802 Phospholipid methyltransferase; Region: PEMT; cl17370 323850008803 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 323850008804 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323850008805 tartrate dehydrogenase; Provisional; Region: PRK08194 323850008806 isocitrate dehydrogenase; Provisional; Region: PRK08997 323850008807 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 323850008808 FtsJ-like methyltransferase; Region: FtsJ; cl17430 323850008809 Protein of unknown function (DUF423); Region: DUF423; pfam04241 323850008810 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 323850008811 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 323850008812 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850008813 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 323850008814 dimerization interface [polypeptide binding]; other site 323850008815 substrate binding pocket [chemical binding]; other site 323850008816 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 323850008817 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 323850008818 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 323850008819 Ligand Binding Site [chemical binding]; other site 323850008820 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 323850008821 active site residue [active] 323850008822 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 323850008823 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 323850008824 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323850008825 ligand binding site [chemical binding]; other site 323850008826 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 323850008827 flagellar motor protein PomA; Reviewed; Region: PRK08990 323850008828 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 323850008829 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 323850008830 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 323850008831 substrate binding pocket [chemical binding]; other site 323850008832 chain length determination region; other site 323850008833 substrate-Mg2+ binding site; other site 323850008834 catalytic residues [active] 323850008835 aspartate-rich region 1; other site 323850008836 active site lid residues [active] 323850008837 aspartate-rich region 2; other site 323850008838 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 323850008839 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 323850008840 TPP-binding site; other site 323850008841 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 323850008842 PYR/PP interface [polypeptide binding]; other site 323850008843 dimer interface [polypeptide binding]; other site 323850008844 TPP binding site [chemical binding]; other site 323850008845 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 323850008846 GrpE; Region: GrpE; pfam01025 323850008847 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 323850008848 dimer interface [polypeptide binding]; other site 323850008849 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 323850008850 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 323850008851 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 323850008852 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323850008853 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 323850008854 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 323850008855 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 323850008856 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 323850008857 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 323850008858 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 323850008859 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 323850008860 ATP binding site [chemical binding]; other site 323850008861 Mg++ binding site [ion binding]; other site 323850008862 motif III; other site 323850008863 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 323850008864 nucleotide binding region [chemical binding]; other site 323850008865 ATP-binding site [chemical binding]; other site 323850008866 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 323850008867 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 323850008868 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 323850008869 putative active site [active] 323850008870 heme pocket [chemical binding]; other site 323850008871 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 323850008872 putative active site [active] 323850008873 heme pocket [chemical binding]; other site 323850008874 PAS domain; Region: PAS_9; pfam13426 323850008875 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850008876 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850008877 metal binding site [ion binding]; metal-binding site 323850008878 active site 323850008879 I-site; other site 323850008880 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 323850008881 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323850008882 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 323850008883 active site 323850008884 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850008885 metal binding site [ion binding]; metal-binding site 323850008886 active site 323850008887 I-site; other site 323850008888 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 323850008889 HDOD domain; Region: HDOD; pfam08668 323850008890 putative protease; Provisional; Region: PRK15452 323850008891 Peptidase family U32; Region: Peptidase_U32; pfam01136 323850008892 PAP2_like_5 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_5; cd03394 323850008893 active site 323850008894 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 323850008895 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 323850008896 SCP-2 sterol transfer family; Region: SCP2; cl01225 323850008897 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 323850008898 Peptidase family U32; Region: Peptidase_U32; pfam01136 323850008899 putative protease; Provisional; Region: PRK15447 323850008900 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 323850008901 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 323850008902 Nucleoside recognition; Region: Gate; pfam07670 323850008903 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 323850008904 Two component regulator propeller; Region: Reg_prop; pfam07494 323850008905 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 323850008906 PAS domain; Region: PAS_9; pfam13426 323850008907 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 323850008908 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323850008909 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 323850008910 ATP binding site [chemical binding]; other site 323850008911 Mg2+ binding site [ion binding]; other site 323850008912 G-X-G motif; other site 323850008913 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 323850008914 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 323850008915 putative acyl-acceptor binding pocket; other site 323850008916 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 323850008917 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 323850008918 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 323850008919 metal binding site [ion binding]; metal-binding site 323850008920 dimer interface [polypeptide binding]; other site 323850008921 FOG: CBS domain [General function prediction only]; Region: COG0517 323850008922 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_24; cd04637 323850008923 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 323850008924 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 323850008925 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 323850008926 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 323850008927 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 323850008928 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 323850008929 molybdopterin cofactor binding site [chemical binding]; other site 323850008930 substrate binding site [chemical binding]; other site 323850008931 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 323850008932 molybdopterin cofactor binding site; other site 323850008933 chaperone protein TorD; Validated; Region: torD; PRK04976 323850008934 DEAD-like helicases superfamily; Region: DEXDc; smart00487 323850008935 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 323850008936 ATP binding site [chemical binding]; other site 323850008937 Mg++ binding site [ion binding]; other site 323850008938 motif III; other site 323850008939 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 323850008940 nucleotide binding region [chemical binding]; other site 323850008941 ATP-binding site [chemical binding]; other site 323850008942 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 323850008943 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 323850008944 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 323850008945 ATP binding site [chemical binding]; other site 323850008946 Mg2+ binding site [ion binding]; other site 323850008947 G-X-G motif; other site 323850008948 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 323850008949 active site 323850008950 phosphorylation site [posttranslational modification] 323850008951 intermolecular recognition site; other site 323850008952 dimerization interface [polypeptide binding]; other site 323850008953 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 323850008954 putative binding surface; other site 323850008955 active site 323850008956 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 323850008957 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 323850008958 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 323850008959 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 323850008960 active site 323850008961 phosphorylation site [posttranslational modification] 323850008962 intermolecular recognition site; other site 323850008963 dimerization interface [polypeptide binding]; other site 323850008964 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 323850008965 DNA binding site [nucleotide binding] 323850008966 PilZ domain; Region: PilZ; pfam07238 323850008967 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 323850008968 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 323850008969 active site 323850008970 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 323850008971 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850008972 Coenzyme A binding pocket [chemical binding]; other site 323850008973 DNA repair protein RadA; Provisional; Region: PRK11823 323850008974 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 323850008975 Walker A motif; other site 323850008976 ATP binding site [chemical binding]; other site 323850008977 Walker B motif; other site 323850008978 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 323850008979 PilZ domain; Region: PilZ; pfam07238 323850008980 PilZ domain; Region: PilZ; pfam07238 323850008981 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 323850008982 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 323850008983 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 323850008984 motif II; other site 323850008985 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 323850008986 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 323850008987 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 323850008988 phosphopentomutase; Provisional; Region: PRK05362 323850008989 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 323850008990 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 323850008991 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 323850008992 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 323850008993 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 323850008994 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 323850008995 intersubunit interface [polypeptide binding]; other site 323850008996 active site 323850008997 catalytic residue [active] 323850008998 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; pfam03502 323850008999 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 323850009000 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 323850009001 Nucleoside recognition; Region: Gate; pfam07670 323850009002 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 323850009003 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 323850009004 active site 323850009005 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 323850009006 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 323850009007 G1 box; other site 323850009008 putative GEF interaction site [polypeptide binding]; other site 323850009009 GTP/Mg2+ binding site [chemical binding]; other site 323850009010 Switch I region; other site 323850009011 G2 box; other site 323850009012 G3 box; other site 323850009013 Switch II region; other site 323850009014 G4 box; other site 323850009015 G5 box; other site 323850009016 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 323850009017 lipoprotein NlpI; Provisional; Region: PRK11189 323850009018 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 323850009019 binding surface 323850009020 TPR motif; other site 323850009021 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 323850009022 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 323850009023 RNase E interface [polypeptide binding]; other site 323850009024 trimer interface [polypeptide binding]; other site 323850009025 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 323850009026 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 323850009027 RNase E interface [polypeptide binding]; other site 323850009028 trimer interface [polypeptide binding]; other site 323850009029 active site 323850009030 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 323850009031 putative nucleic acid binding region [nucleotide binding]; other site 323850009032 G-X-X-G motif; other site 323850009033 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 323850009034 RNA binding site [nucleotide binding]; other site 323850009035 domain interface; other site 323850009036 biofilm formation regulator HmsP; Provisional; Region: PRK11829 323850009037 HAMP domain; Region: HAMP; pfam00672 323850009038 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850009039 metal binding site [ion binding]; metal-binding site 323850009040 active site 323850009041 I-site; other site 323850009042 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 323850009043 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 323850009044 16S/18S rRNA binding site [nucleotide binding]; other site 323850009045 S13e-L30e interaction site [polypeptide binding]; other site 323850009046 25S rRNA binding site [nucleotide binding]; other site 323850009047 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 323850009048 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 323850009049 RNA binding site [nucleotide binding]; other site 323850009050 active site 323850009051 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 323850009052 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 323850009053 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 323850009054 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 323850009055 translation initiation factor IF-2; Region: IF-2; TIGR00487 323850009056 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 323850009057 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 323850009058 G1 box; other site 323850009059 putative GEF interaction site [polypeptide binding]; other site 323850009060 GTP/Mg2+ binding site [chemical binding]; other site 323850009061 Switch I region; other site 323850009062 G2 box; other site 323850009063 G3 box; other site 323850009064 Switch II region; other site 323850009065 G4 box; other site 323850009066 G5 box; other site 323850009067 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 323850009068 Translation-initiation factor 2; Region: IF-2; pfam11987 323850009069 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 323850009070 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 323850009071 NusA N-terminal domain; Region: NusA_N; pfam08529 323850009072 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 323850009073 RNA binding site [nucleotide binding]; other site 323850009074 homodimer interface [polypeptide binding]; other site 323850009075 NusA-like KH domain; Region: KH_5; pfam13184 323850009076 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 323850009077 G-X-X-G motif; other site 323850009078 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 323850009079 ribosome maturation protein RimP; Reviewed; Region: PRK00092 323850009080 Sm and related proteins; Region: Sm_like; cl00259 323850009081 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 323850009082 putative oligomer interface [polypeptide binding]; other site 323850009083 putative RNA binding site [nucleotide binding]; other site 323850009084 Preprotein translocase SecG subunit; Region: SecG; pfam03840 323850009085 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 323850009086 triosephosphate isomerase; Provisional; Region: PRK14567 323850009087 substrate binding site [chemical binding]; other site 323850009088 dimer interface [polypeptide binding]; other site 323850009089 catalytic triad [active] 323850009090 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 323850009091 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 323850009092 active site 323850009093 substrate binding site [chemical binding]; other site 323850009094 metal binding site [ion binding]; metal-binding site 323850009095 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 323850009096 dihydropteroate synthase; Region: DHPS; TIGR01496 323850009097 substrate binding pocket [chemical binding]; other site 323850009098 dimer interface [polypeptide binding]; other site 323850009099 inhibitor binding site; inhibition site 323850009100 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 323850009101 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 323850009102 Walker A motif; other site 323850009103 ATP binding site [chemical binding]; other site 323850009104 Walker B motif; other site 323850009105 arginine finger; other site 323850009106 Peptidase family M41; Region: Peptidase_M41; pfam01434 323850009107 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 323850009108 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 323850009109 S-adenosylmethionine binding site [chemical binding]; other site 323850009110 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 323850009111 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 323850009112 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 323850009113 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 323850009114 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 323850009115 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323850009116 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 323850009117 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 323850009118 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323850009119 ATP-grasp domain; Region: ATP-grasp_4; cl17255 323850009120 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 323850009121 IMP binding site; other site 323850009122 dimer interface [polypeptide binding]; other site 323850009123 interdomain contacts; other site 323850009124 partial ornithine binding site; other site 323850009125 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 323850009126 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 323850009127 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 323850009128 catalytic site [active] 323850009129 subunit interface [polypeptide binding]; other site 323850009130 dihydrodipicolinate reductase; Provisional; Region: PRK00048 323850009131 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 323850009132 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 323850009133 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 323850009134 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 323850009135 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 323850009136 Peptidase family M48; Region: Peptidase_M48; pfam01435 323850009137 chaperone protein DnaJ; Provisional; Region: PRK10767 323850009138 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 323850009139 HSP70 interaction site [polypeptide binding]; other site 323850009140 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 323850009141 substrate binding site [polypeptide binding]; other site 323850009142 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 323850009143 Zn binding sites [ion binding]; other site 323850009144 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 323850009145 dimer interface [polypeptide binding]; other site 323850009146 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 323850009147 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 323850009148 nucleotide binding site [chemical binding]; other site 323850009149 EamA-like transporter family; Region: EamA; cl17759 323850009150 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 323850009151 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 323850009152 putative catalytic cysteine [active] 323850009153 gamma-glutamyl kinase; Provisional; Region: PRK05429 323850009154 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 323850009155 nucleotide binding site [chemical binding]; other site 323850009156 homotetrameric interface [polypeptide binding]; other site 323850009157 putative phosphate binding site [ion binding]; other site 323850009158 putative allosteric binding site; other site 323850009159 PUA domain; Region: PUA; pfam01472 323850009160 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 323850009161 multifunctional aminopeptidase A; Provisional; Region: PRK00913 323850009162 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 323850009163 interface (dimer of trimers) [polypeptide binding]; other site 323850009164 Substrate-binding/catalytic site; other site 323850009165 Zn-binding sites [ion binding]; other site 323850009166 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 323850009167 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 323850009168 metal binding site [ion binding]; metal-binding site 323850009169 dimer interface [polypeptide binding]; other site 323850009170 Putative amidotransferase; Region: DUF4066; pfam13278 323850009171 conserved cys residue [active] 323850009172 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 323850009173 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850009174 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 323850009175 substrate binding pocket [chemical binding]; other site 323850009176 dimerization interface [polypeptide binding]; other site 323850009177 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 323850009178 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 323850009179 dimer interface [polypeptide binding]; other site 323850009180 active site 323850009181 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 323850009182 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 323850009183 catalytic core [active] 323850009184 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 323850009185 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 323850009186 active site 323850009187 Phosphotransferase enzyme family; Region: APH; pfam01636 323850009188 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 323850009189 putative active site [active] 323850009190 putative substrate binding site [chemical binding]; other site 323850009191 ATP binding site [chemical binding]; other site 323850009192 short chain dehydrogenase; Provisional; Region: PRK07035 323850009193 classical (c) SDRs; Region: SDR_c; cd05233 323850009194 NAD(P) binding site [chemical binding]; other site 323850009195 active site 323850009196 short chain dehydrogenase; Provisional; Region: PRK06172 323850009197 classical (c) SDRs; Region: SDR_c; cd05233 323850009198 NAD(P) binding site [chemical binding]; other site 323850009199 active site 323850009200 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 323850009201 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 323850009202 substrate binding site [chemical binding]; other site 323850009203 oxyanion hole (OAH) forming residues; other site 323850009204 trimer interface [polypeptide binding]; other site 323850009205 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 323850009206 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 323850009207 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 323850009208 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323850009209 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323850009210 acyl-CoA synthetase; Validated; Region: PRK06178 323850009211 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 323850009212 acyl-activating enzyme (AAE) consensus motif; other site 323850009213 AMP binding site [chemical binding]; other site 323850009214 active site 323850009215 CoA binding site [chemical binding]; other site 323850009216 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 323850009217 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323850009218 ATP-grasp domain; Region: ATP-grasp_4; cl17255 323850009219 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 323850009220 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 323850009221 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 323850009222 carboxyltransferase (CT) interaction site; other site 323850009223 biotinylation site [posttranslational modification]; other site 323850009224 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 323850009225 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 323850009226 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 323850009227 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 323850009228 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 323850009229 active site 323850009230 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 323850009231 Predicted acyl esterases [General function prediction only]; Region: COG2936 323850009232 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323850009233 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 323850009234 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 323850009235 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 323850009236 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 323850009237 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 323850009238 active site 323850009239 DNA polymerase IV; Validated; Region: PRK02406 323850009240 DNA binding site [nucleotide binding] 323850009241 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 323850009242 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 323850009243 heme binding site [chemical binding]; other site 323850009244 ferroxidase pore; other site 323850009245 ferroxidase diiron center [ion binding]; other site 323850009246 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 323850009247 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 323850009248 heme binding site [chemical binding]; other site 323850009249 ferroxidase pore; other site 323850009250 ferroxidase diiron center [ion binding]; other site 323850009251 Protein of unknown function (DUF539); Region: DUF539; cl01129 323850009252 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 323850009253 Photosystem II Pbs27; Region: PSII_Pbs27; cl11841 323850009254 ApbE family; Region: ApbE; pfam02424 323850009255 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 323850009256 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 323850009257 catalytic loop [active] 323850009258 iron binding site [ion binding]; other site 323850009259 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 323850009260 FAD binding pocket [chemical binding]; other site 323850009261 FAD binding motif [chemical binding]; other site 323850009262 phosphate binding motif [ion binding]; other site 323850009263 beta-alpha-beta structure motif; other site 323850009264 NAD binding pocket [chemical binding]; other site 323850009265 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 323850009266 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 323850009267 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 323850009268 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 323850009269 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 323850009270 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 323850009271 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 323850009272 S-ribosylhomocysteinase; Provisional; Region: PRK02260 323850009273 BolA-like protein; Region: BolA; cl00386 323850009274 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 323850009275 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 323850009276 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 323850009277 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 323850009278 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 323850009279 S-adenosylmethionine binding site [chemical binding]; other site 323850009280 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 323850009281 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 323850009282 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 323850009283 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 323850009284 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 323850009285 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 323850009286 substrate binding site [chemical binding]; other site 323850009287 muropeptide transporter; Reviewed; Region: ampG; PRK11902 323850009288 AmpG-like permease; Region: 2A0125; TIGR00901 323850009289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 323850009290 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 323850009291 Predicted integral membrane protein [Function unknown]; Region: COG5652 323850009292 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 323850009293 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 323850009294 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 323850009295 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 323850009296 Na2 binding site [ion binding]; other site 323850009297 putative substrate binding site 1 [chemical binding]; other site 323850009298 Na binding site 1 [ion binding]; other site 323850009299 putative substrate binding site 2 [chemical binding]; other site 323850009300 transcriptional regulator HdfR; Provisional; Region: PRK03601 323850009301 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850009302 LysR substrate binding domain; Region: LysR_substrate; pfam03466 323850009303 hypothetical protein; Provisional; Region: PRK11027 323850009304 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 323850009305 glutathione synthetase; Provisional; Region: PRK12458 323850009306 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 323850009307 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 323850009308 Domain of unknown function (DUF1704); Region: DUF1704; pfam08014 323850009309 PAP2 superfamily; Region: PAP2; pfam01569 323850009310 active site 323850009311 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; cl01054 323850009312 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323850009313 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850009314 dimer interface [polypeptide binding]; other site 323850009315 putative CheW interface [polypeptide binding]; other site 323850009316 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 323850009317 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 323850009318 Protein of unknown function (DUF819); Region: DUF819; cl02317 323850009319 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 323850009320 Tetratricopeptide repeat; Region: TPR_9; pfam13371 323850009321 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 323850009322 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850009323 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850009324 The C-terminal substrate biniding domain of an uncharacterized LysR-like transcriptional regulator Pa0477 related to DntR, contains the type 2 periplasmic binding fold; Region: PBP2_Pa0477; cd08468 323850009325 putative substrate binding pocket [chemical binding]; other site 323850009326 dimerization interface [polypeptide binding]; other site 323850009327 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850009328 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 323850009329 Coenzyme A binding pocket [chemical binding]; other site 323850009330 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 323850009331 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 323850009332 S-adenosylmethionine binding site [chemical binding]; other site 323850009333 peptide chain release factor 1; Validated; Region: prfA; PRK00591 323850009334 This domain is found in peptide chain release factors; Region: PCRF; smart00937 323850009335 RF-1 domain; Region: RF-1; pfam00472 323850009336 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 323850009337 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 323850009338 tRNA; other site 323850009339 putative tRNA binding site [nucleotide binding]; other site 323850009340 putative NADP binding site [chemical binding]; other site 323850009341 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 323850009342 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 323850009343 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 323850009344 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 323850009345 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 323850009346 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 323850009347 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 323850009348 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 323850009349 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323850009350 active site 323850009351 GTP-binding protein YchF; Reviewed; Region: PRK09601 323850009352 YchF GTPase; Region: YchF; cd01900 323850009353 G1 box; other site 323850009354 GTP/Mg2+ binding site [chemical binding]; other site 323850009355 Switch I region; other site 323850009356 G2 box; other site 323850009357 Switch II region; other site 323850009358 G3 box; other site 323850009359 G4 box; other site 323850009360 G5 box; other site 323850009361 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 323850009362 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 323850009363 putative active site [active] 323850009364 catalytic residue [active] 323850009365 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 323850009366 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 323850009367 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 323850009368 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 323850009369 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 323850009370 FeS/SAM binding site; other site 323850009371 TRAM domain; Region: TRAM; pfam01938 323850009372 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 323850009373 PhoH-like protein; Region: PhoH; pfam02562 323850009374 metal-binding heat shock protein; Provisional; Region: PRK00016 323850009375 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 323850009376 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 323850009377 Transporter associated domain; Region: CorC_HlyC; smart01091 323850009378 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 323850009379 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 323850009380 putative active site [active] 323850009381 catalytic triad [active] 323850009382 putative dimer interface [polypeptide binding]; other site 323850009383 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 323850009384 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 323850009385 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 323850009386 HIGH motif; other site 323850009387 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 323850009388 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323850009389 active site 323850009390 KMSKS motif; other site 323850009391 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 323850009392 tRNA binding surface [nucleotide binding]; other site 323850009393 Lipopolysaccharide-assembly; Region: LptE; cl01125 323850009394 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 323850009395 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 323850009396 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 323850009397 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 323850009398 active site 323850009399 (T/H)XGH motif; other site 323850009400 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 323850009401 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 323850009402 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 323850009403 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 323850009404 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 323850009405 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 323850009406 Transglycosylase SLT domain; Region: SLT_2; pfam13406 323850009407 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 323850009408 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323850009409 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 323850009410 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 323850009411 Sporulation related domain; Region: SPOR; pfam05036 323850009412 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 323850009413 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 323850009414 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 323850009415 hypothetical protein; Provisional; Region: PRK04998 323850009416 lipoate-protein ligase B; Provisional; Region: PRK14342 323850009417 lipoyl synthase; Provisional; Region: PRK05481 323850009418 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 323850009419 FeS/SAM binding site; other site 323850009420 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 323850009421 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850009422 Coenzyme A binding pocket [chemical binding]; other site 323850009423 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 323850009424 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 323850009425 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 323850009426 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 323850009427 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 323850009428 Clp amino terminal domain; Region: Clp_N; pfam02861 323850009429 Clp amino terminal domain; Region: Clp_N; pfam02861 323850009430 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 323850009431 Walker A motif; other site 323850009432 ATP binding site [chemical binding]; other site 323850009433 Walker B motif; other site 323850009434 arginine finger; other site 323850009435 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 323850009436 Walker A motif; other site 323850009437 ATP binding site [chemical binding]; other site 323850009438 Walker B motif; other site 323850009439 arginine finger; other site 323850009440 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 323850009441 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 323850009442 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 323850009443 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 323850009444 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 323850009445 RNA binding surface [nucleotide binding]; other site 323850009446 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 323850009447 active site 323850009448 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 323850009449 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 323850009450 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 323850009451 HAMP domain; Region: HAMP; pfam00672 323850009452 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850009453 dimer interface [polypeptide binding]; other site 323850009454 putative CheW interface [polypeptide binding]; other site 323850009455 CHASE4 domain; Region: CHASE4; pfam05228 323850009456 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; cl01054 323850009457 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850009458 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850009459 metal binding site [ion binding]; metal-binding site 323850009460 active site 323850009461 I-site; other site 323850009462 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 323850009463 dimerization interface [polypeptide binding]; other site 323850009464 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323850009465 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850009466 dimer interface [polypeptide binding]; other site 323850009467 putative CheW interface [polypeptide binding]; other site 323850009468 ornithine cyclodeaminase; Validated; Region: PRK06141 323850009469 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 323850009470 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 323850009471 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323850009472 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 323850009473 DNA binding residues [nucleotide binding] 323850009474 transcriptional regulator BetI; Validated; Region: PRK00767 323850009475 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 323850009476 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 323850009477 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850009478 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850009479 LysR substrate binding domain; Region: LysR_substrate; pfam03466 323850009480 dimerization interface [polypeptide binding]; other site 323850009481 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 323850009482 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 323850009483 active site 323850009484 catalytic triad [active] 323850009485 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 323850009486 PA/protease or protease-like domain interface [polypeptide binding]; other site 323850009487 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 323850009488 catalytic residues [active] 323850009489 malate dehydrogenase; Provisional; Region: PRK13529 323850009490 Malic enzyme, N-terminal domain; Region: malic; pfam00390 323850009491 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 323850009492 NAD(P) binding site [chemical binding]; other site 323850009493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 323850009494 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 323850009495 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 323850009496 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 323850009497 Beta-lactamase; Region: Beta-lactamase; pfam00144 323850009498 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 323850009499 Bacterial PH domain; Region: DUF304; pfam03703 323850009500 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 323850009501 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 323850009502 N-terminal plug; other site 323850009503 ligand-binding site [chemical binding]; other site 323850009504 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 323850009505 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 323850009506 putative C-terminal domain interface [polypeptide binding]; other site 323850009507 putative GSH binding site (G-site) [chemical binding]; other site 323850009508 putative dimer interface [polypeptide binding]; other site 323850009509 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 323850009510 N-terminal domain interface [polypeptide binding]; other site 323850009511 dimer interface [polypeptide binding]; other site 323850009512 substrate binding pocket (H-site) [chemical binding]; other site 323850009513 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 323850009514 non-specific DNA binding site [nucleotide binding]; other site 323850009515 salt bridge; other site 323850009516 sequence-specific DNA binding site [nucleotide binding]; other site 323850009517 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 323850009518 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 323850009519 synthetase active site [active] 323850009520 NTP binding site [chemical binding]; other site 323850009521 metal binding site [ion binding]; metal-binding site 323850009522 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 323850009523 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 323850009524 active site 323850009525 Zn binding site [ion binding]; other site 323850009526 maltose O-acetyltransferase; Provisional; Region: PRK10092 323850009527 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 323850009528 active site 323850009529 substrate binding site [chemical binding]; other site 323850009530 trimer interface [polypeptide binding]; other site 323850009531 CoA binding site [chemical binding]; other site 323850009532 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 323850009533 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 323850009534 RNA binding surface [nucleotide binding]; other site 323850009535 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 323850009536 active site 323850009537 uracil binding [chemical binding]; other site 323850009538 Protein of unknown function (DUF3069); Region: DUF3069; pfam11269 323850009539 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323850009540 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850009541 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850009542 metal binding site [ion binding]; metal-binding site 323850009543 active site 323850009544 I-site; other site 323850009545 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323850009546 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 323850009547 substrate binding pocket [chemical binding]; other site 323850009548 membrane-bound complex binding site; other site 323850009549 hinge residues; other site 323850009550 epoxyqueuosine reductase; Region: TIGR00276 323850009551 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 323850009552 Dodecin; Region: Dodecin; pfam07311 323850009553 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 323850009554 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 323850009555 SCP-2 sterol transfer family; Region: SCP2; pfam02036 323850009556 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 323850009557 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 323850009558 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 323850009559 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 323850009560 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 323850009561 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 323850009562 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 323850009563 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 323850009564 active site 323850009565 FMN binding site [chemical binding]; other site 323850009566 substrate binding site [chemical binding]; other site 323850009567 3Fe-4S cluster binding site [ion binding]; other site 323850009568 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323850009569 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323850009570 Sel1-like repeats; Region: SEL1; smart00671 323850009571 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 323850009572 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 323850009573 THF binding site; other site 323850009574 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 323850009575 substrate binding site [chemical binding]; other site 323850009576 THF binding site; other site 323850009577 zinc-binding site [ion binding]; other site 323850009578 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850009579 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850009580 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 323850009581 dimerization interface [polypeptide binding]; other site 323850009582 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 323850009583 active site 323850009584 catalytic triad [active] 323850009585 oxyanion hole [active] 323850009586 switch loop; other site 323850009587 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 323850009588 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 323850009589 N-terminal plug; other site 323850009590 ligand-binding site [chemical binding]; other site 323850009591 Protein of unknown function (DUF805); Region: DUF805; pfam05656 323850009592 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 323850009593 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 323850009594 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 323850009595 active site 323850009596 Penicillinase repressor; Region: Pencillinase_R; pfam03965 323850009597 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 323850009598 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 323850009599 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 323850009600 inhibitor binding site; inhibition site 323850009601 catalytic motif [active] 323850009602 Catalytic residue [active] 323850009603 Active site flap [active] 323850009604 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 323850009605 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 323850009606 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 323850009607 active site 323850009608 SAM binding site [chemical binding]; other site 323850009609 homodimer interface [polypeptide binding]; other site 323850009610 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850009611 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850009612 metal binding site [ion binding]; metal-binding site 323850009613 active site 323850009614 I-site; other site 323850009615 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 323850009616 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 323850009617 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 323850009618 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 323850009619 substrate binding pocket [chemical binding]; other site 323850009620 membrane-bound complex binding site; other site 323850009621 hinge residues; other site 323850009622 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 323850009623 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 323850009624 active site 323850009625 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 323850009626 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 323850009627 Cysteine-rich domain; Region: CCG; pfam02754 323850009628 Cysteine-rich domain; Region: CCG; pfam02754 323850009629 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 323850009630 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 323850009631 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 323850009632 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 323850009633 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850009634 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850009635 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 323850009636 putative effector binding pocket; other site 323850009637 dimerization interface [polypeptide binding]; other site 323850009638 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 323850009639 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 323850009640 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323850009641 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323850009642 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323850009643 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 323850009644 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 323850009645 MgtE intracellular N domain; Region: MgtE_N; pfam03448 323850009646 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 323850009647 Divalent cation transporter; Region: MgtE; cl00786 323850009648 Mechanosensitive ion channel; Region: MS_channel; pfam00924 323850009649 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 323850009650 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 323850009651 Na binding site [ion binding]; other site 323850009652 gamma-glutamyl kinase; Provisional; Region: PRK13402 323850009653 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 323850009654 nucleotide binding site [chemical binding]; other site 323850009655 homotetrameric interface [polypeptide binding]; other site 323850009656 putative phosphate binding site [ion binding]; other site 323850009657 putative allosteric binding site; other site 323850009658 PUA domain; Region: PUA; cl00607 323850009659 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 323850009660 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 323850009661 putative catalytic cysteine [active] 323850009662 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 323850009663 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 323850009664 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 323850009665 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 323850009666 putative active site [active] 323850009667 catalytic site [active] 323850009668 putative metal binding site [ion binding]; other site 323850009669 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 323850009670 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 323850009671 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 323850009672 active site 323850009673 Zn binding site [ion binding]; other site 323850009674 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 323850009675 Lamin Tail Domain; Region: LTD; pfam00932 323850009676 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 323850009677 Endonuclease I; Region: Endonuclease_1; pfam04231 323850009678 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 323850009679 Predicted membrane protein [Function unknown]; Region: COG3235 323850009680 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850009681 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850009682 metal binding site [ion binding]; metal-binding site 323850009683 active site 323850009684 I-site; other site 323850009685 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 323850009686 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 323850009687 active site 323850009688 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 323850009689 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 323850009690 PLD-like domain; Region: PLDc_2; pfam13091 323850009691 putative active site [active] 323850009692 catalytic site [active] 323850009693 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 323850009694 PLD-like domain; Region: PLDc_2; pfam13091 323850009695 putative active site [active] 323850009696 catalytic site [active] 323850009697 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 323850009698 PAP2_like_5 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_5; cd03394 323850009699 active site 323850009700 YcaO domain protein; Region: TIGR03549 323850009701 OsmC-like protein; Region: OsmC; pfam02566 323850009702 YcaO-like family; Region: YcaO; pfam02624 323850009703 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850009704 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850009705 metal binding site [ion binding]; metal-binding site 323850009706 active site 323850009707 I-site; other site 323850009708 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 323850009709 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 323850009710 putative active site [active] 323850009711 putative dimer interface [polypeptide binding]; other site 323850009712 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 323850009713 ATP-grasp domain; Region: ATP-grasp_4; cl17255 323850009714 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 323850009715 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 323850009716 active site 323850009717 dimer interface [polypeptide binding]; other site 323850009718 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 323850009719 Ligand Binding Site [chemical binding]; other site 323850009720 Molecular Tunnel; other site 323850009721 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 323850009722 Ribosome recycling factor; Region: RRF_GI; pfam12614 323850009723 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 323850009724 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; cl01054 323850009725 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323850009726 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850009727 dimer interface [polypeptide binding]; other site 323850009728 putative CheW interface [polypeptide binding]; other site 323850009729 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 323850009730 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 323850009731 ligand binding site [chemical binding]; other site 323850009732 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 323850009733 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 323850009734 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323850009735 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 323850009736 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 323850009737 putative NAD(P) binding site [chemical binding]; other site 323850009738 putative substrate binding site [chemical binding]; other site 323850009739 catalytic Zn binding site [ion binding]; other site 323850009740 structural Zn binding site [ion binding]; other site 323850009741 dimer interface [polypeptide binding]; other site 323850009742 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 323850009743 Major Facilitator Superfamily; Region: MFS_1; pfam07690 323850009744 putative substrate translocation pore; other site 323850009745 Uncharacterized conserved protein [Function unknown]; Region: COG4925 323850009746 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 323850009747 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 323850009748 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 323850009749 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850009750 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 323850009751 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850009752 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 323850009753 Beta-lactamase; Region: Beta-lactamase; pfam00144 323850009754 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 323850009755 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 323850009756 catalytic motif [active] 323850009757 Zn binding site [ion binding]; other site 323850009758 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 323850009759 Beta-lactamase; Region: Beta-lactamase; pfam00144 323850009760 Part of AAA domain; Region: AAA_19; pfam13245 323850009761 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 323850009762 AAA domain; Region: AAA_12; pfam13087 323850009763 glycine dehydrogenase; Provisional; Region: PRK05367 323850009764 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 323850009765 tetramer interface [polypeptide binding]; other site 323850009766 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850009767 catalytic residue [active] 323850009768 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 323850009769 tetramer interface [polypeptide binding]; other site 323850009770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850009771 catalytic residue [active] 323850009772 glycine cleavage system protein H; Provisional; Region: PRK13380 323850009773 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 323850009774 lipoyl attachment site [posttranslational modification]; other site 323850009775 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 323850009776 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 323850009777 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 323850009778 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 323850009779 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 323850009780 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 323850009781 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 323850009782 Cell division protein ZapA; Region: ZapA; pfam05164 323850009783 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 323850009784 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 323850009785 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323850009786 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 323850009787 substrate binding pocket [chemical binding]; other site 323850009788 membrane-bound complex binding site; other site 323850009789 hinge residues; other site 323850009790 NlpE N-terminal domain; Region: NlpE; pfam04170 323850009791 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 323850009792 RNA binding site [nucleotide binding]; other site 323850009793 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 323850009794 ligand binding site [chemical binding]; other site 323850009795 active site 323850009796 UGI interface [polypeptide binding]; other site 323850009797 catalytic site [active] 323850009798 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 323850009799 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 323850009800 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 323850009801 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 323850009802 exopolyphosphatase; Region: exo_poly_only; TIGR03706 323850009803 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 323850009804 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 323850009805 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 323850009806 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 323850009807 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 323850009808 domain interface [polypeptide binding]; other site 323850009809 active site 323850009810 catalytic site [active] 323850009811 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 323850009812 domain interface [polypeptide binding]; other site 323850009813 active site 323850009814 catalytic site [active] 323850009815 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 323850009816 DsbD alpha interface [polypeptide binding]; other site 323850009817 catalytic residues [active] 323850009818 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 323850009819 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 323850009820 N-terminal plug; other site 323850009821 ligand-binding site [chemical binding]; other site 323850009822 PAS domain S-box; Region: sensory_box; TIGR00229 323850009823 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 323850009824 putative active site [active] 323850009825 heme pocket [chemical binding]; other site 323850009826 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 323850009827 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 323850009828 Walker A motif; other site 323850009829 ATP binding site [chemical binding]; other site 323850009830 Walker B motif; other site 323850009831 arginine finger; other site 323850009832 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323850009833 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 323850009834 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 323850009835 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 323850009836 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 323850009837 acyl-activating enzyme (AAE) consensus motif; other site 323850009838 putative AMP binding site [chemical binding]; other site 323850009839 putative active site [active] 323850009840 putative CoA binding site [chemical binding]; other site 323850009841 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 323850009842 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 323850009843 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 323850009844 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323850009845 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323850009846 Walker A/P-loop; other site 323850009847 ATP binding site [chemical binding]; other site 323850009848 Q-loop/lid; other site 323850009849 ABC transporter signature motif; other site 323850009850 Walker B; other site 323850009851 D-loop; other site 323850009852 H-loop/switch region; other site 323850009853 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 323850009854 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 323850009855 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 323850009856 Bacterial PH domain; Region: DUF304; pfam03703 323850009857 Bacterial PH domain; Region: DUF304; pfam03703 323850009858 Bacterial PH domain; Region: DUF304; cl01348 323850009859 Bacterial PH domain; Region: DUF304; pfam03703 323850009860 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 323850009861 hypothetical protein; Provisional; Region: PRK10621 323850009862 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 323850009863 Zinc-dependent metalloprotease, pappalysin_like subfamily. The pregnancy-associated plasma protein A (PAPP-A or pappalysin-1) cleaves insulin-like growth factor-binding proteins 4 and 5, thereby promoting cell growth by releasing bound growth factor; Region: ZnMc_pappalysin_like; cd04275 323850009864 active site 323850009865 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 323850009866 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 323850009867 N-terminal plug; other site 323850009868 ligand-binding site [chemical binding]; other site 323850009869 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 323850009870 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 323850009871 FMN binding site [chemical binding]; other site 323850009872 active site 323850009873 substrate binding site [chemical binding]; other site 323850009874 catalytic residue [active] 323850009875 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323850009876 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323850009877 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 323850009878 Ligand Binding Site [chemical binding]; other site 323850009879 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 323850009880 Ligand Binding Site [chemical binding]; other site 323850009881 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 323850009882 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 323850009883 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 323850009884 NAD(P) binding site [chemical binding]; other site 323850009885 catalytic residues [active] 323850009886 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323850009887 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323850009888 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850009889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850009890 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 323850009891 putative effector binding pocket; other site 323850009892 dimerization interface [polypeptide binding]; other site 323850009893 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 323850009894 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 323850009895 potential catalytic triad [active] 323850009896 conserved cys residue [active] 323850009897 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 323850009898 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 323850009899 active site 323850009900 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 323850009901 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323850009902 NAD(P) binding site [chemical binding]; other site 323850009903 active site 323850009904 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 323850009905 heme-binding residues [chemical binding]; other site 323850009906 L-aspartate oxidase; Provisional; Region: PRK06175 323850009907 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 323850009908 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323850009909 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 323850009910 substrate binding pocket [chemical binding]; other site 323850009911 membrane-bound complex binding site; other site 323850009912 hinge residues; other site 323850009913 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 323850009914 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 323850009915 dimer interface [polypeptide binding]; other site 323850009916 phosphorylation site [posttranslational modification] 323850009917 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 323850009918 ATP binding site [chemical binding]; other site 323850009919 Mg2+ binding site [ion binding]; other site 323850009920 G-X-G motif; other site 323850009921 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 323850009922 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 323850009923 active site 323850009924 phosphorylation site [posttranslational modification] 323850009925 intermolecular recognition site; other site 323850009926 dimerization interface [polypeptide binding]; other site 323850009927 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 323850009928 Walker A motif; other site 323850009929 ATP binding site [chemical binding]; other site 323850009930 Walker B motif; other site 323850009931 arginine finger; other site 323850009932 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323850009933 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 323850009934 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 323850009935 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 323850009936 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 323850009937 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 323850009938 FMN-binding domain; Region: FMN_bind; pfam04205 323850009939 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 323850009940 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 323850009941 Transglycosylase; Region: Transgly; pfam00912 323850009942 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 323850009943 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 323850009944 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 323850009945 ATP binding site [chemical binding]; other site 323850009946 putative Mg++ binding site [ion binding]; other site 323850009947 helicase superfamily c-terminal domain; Region: HELICc; smart00490 323850009948 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 323850009949 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 323850009950 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850009951 metal binding site [ion binding]; metal-binding site 323850009952 active site 323850009953 I-site; other site 323850009954 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 323850009955 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 323850009956 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 323850009957 aminopeptidase B; Provisional; Region: PRK05015 323850009958 Peptidase; Region: DUF3663; pfam12404 323850009959 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 323850009960 interface (dimer of trimers) [polypeptide binding]; other site 323850009961 Substrate-binding/catalytic site; other site 323850009962 Zn-binding sites [ion binding]; other site 323850009963 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 323850009964 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 323850009965 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 323850009966 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 323850009967 active site 323850009968 HIGH motif; other site 323850009969 nucleotide binding site [chemical binding]; other site 323850009970 active site 323850009971 KMSKS motif; other site 323850009972 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 323850009973 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 323850009974 active site 323850009975 NTP binding site [chemical binding]; other site 323850009976 metal binding triad [ion binding]; metal-binding site 323850009977 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 323850009978 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 323850009979 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 323850009980 catalytic center binding site [active] 323850009981 ATP binding site [chemical binding]; other site 323850009982 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 323850009983 oligomerization interface [polypeptide binding]; other site 323850009984 active site 323850009985 metal binding site [ion binding]; metal-binding site 323850009986 Pantoate-beta-alanine ligase; Region: PanC; cd00560 323850009987 pantoate--beta-alanine ligase; Region: panC; TIGR00018 323850009988 active site 323850009989 ATP-binding site [chemical binding]; other site 323850009990 pantoate-binding site; other site 323850009991 HXXH motif; other site 323850009992 L-lactate permease; Region: Lactate_perm; cl00701 323850009993 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 323850009994 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 323850009995 FAD binding domain; Region: FAD_binding_4; pfam01565 323850009996 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 323850009997 protein structure with unknown function; Region: DUF4144; pfam13642 323850009998 inner membrane transport permease; Provisional; Region: PRK15066 323850009999 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 323850010000 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 323850010001 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 323850010002 Walker A/P-loop; other site 323850010003 ATP binding site [chemical binding]; other site 323850010004 Q-loop/lid; other site 323850010005 ABC transporter signature motif; other site 323850010006 Walker B; other site 323850010007 D-loop; other site 323850010008 H-loop/switch region; other site 323850010009 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323850010010 active site 323850010011 aromatic acid decarboxylase; Validated; Region: PRK05920 323850010012 Flavoprotein; Region: Flavoprotein; pfam02441 323850010013 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 323850010014 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 323850010015 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323850010016 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323850010017 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 323850010018 MarR family; Region: MarR_2; pfam12802 323850010019 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 323850010020 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 323850010021 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 323850010022 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 323850010023 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 323850010024 active site 323850010025 catalytic triad [active] 323850010026 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 323850010027 PA/protease or protease-like domain interface [polypeptide binding]; other site 323850010028 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 323850010029 catalytic residues [active] 323850010030 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850010031 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850010032 LysR substrate binding domain; Region: LysR_substrate; pfam03466 323850010033 dimerization interface [polypeptide binding]; other site 323850010034 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850010035 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850010036 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 323850010037 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 323850010038 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 323850010039 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 323850010040 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 323850010041 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 323850010042 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 323850010043 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 323850010044 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 323850010045 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 323850010046 putative active site [active] 323850010047 PAS fold; Region: PAS_3; pfam08447 323850010048 heme pocket [chemical binding]; other site 323850010049 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850010050 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850010051 metal binding site [ion binding]; metal-binding site 323850010052 active site 323850010053 I-site; other site 323850010054 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 323850010055 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 323850010056 Walker A/P-loop; other site 323850010057 ATP binding site [chemical binding]; other site 323850010058 Q-loop/lid; other site 323850010059 ABC transporter signature motif; other site 323850010060 Walker B; other site 323850010061 D-loop; other site 323850010062 H-loop/switch region; other site 323850010063 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323850010064 dimer interface [polypeptide binding]; other site 323850010065 conserved gate region; other site 323850010066 putative PBP binding loops; other site 323850010067 ABC-ATPase subunit interface; other site 323850010068 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323850010069 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 323850010070 substrate binding pocket [chemical binding]; other site 323850010071 membrane-bound complex binding site; other site 323850010072 hinge residues; other site 323850010073 Helix-turn-helix domain; Region: HTH_17; cl17695 323850010074 Uncharacterized conserved protein [Function unknown]; Region: COG2968 323850010075 oxidative stress defense protein; Provisional; Region: PRK11087 323850010076 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 323850010077 structural tetrad; other site 323850010078 FOG: WD40 repeat [General function prediction only]; Region: COG2319 323850010079 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 323850010080 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 323850010081 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 323850010082 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 323850010083 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 323850010084 inhibitor-cofactor binding pocket; inhibition site 323850010085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850010086 catalytic residue [active] 323850010087 succinic semialdehyde dehydrogenase; Region: PLN02278 323850010088 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 323850010089 tetramerization interface [polypeptide binding]; other site 323850010090 NAD(P) binding site [chemical binding]; other site 323850010091 catalytic residues [active] 323850010092 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850010093 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850010094 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 323850010095 dimerization interface [polypeptide binding]; other site 323850010096 outer membrane porin, OprD family; Region: OprD; pfam03573 323850010097 Transcriptional regulators [Transcription]; Region: FadR; COG2186 323850010098 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 323850010099 DNA-binding site [nucleotide binding]; DNA binding site 323850010100 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 323850010101 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 323850010102 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 323850010103 Protein of unknown function (DUF998); Region: DUF998; pfam06197 323850010104 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 323850010105 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; cl09940 323850010106 RNA binding surface [nucleotide binding]; other site 323850010107 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 323850010108 probable active site [active] 323850010109 FAD binding domain; Region: FAD_binding_2; pfam00890 323850010110 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 323850010111 heme-binding residues [chemical binding]; other site 323850010112 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 323850010113 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 323850010114 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 323850010115 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 323850010116 conserved cys residue [active] 323850010117 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850010118 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850010119 Peptidase S46; Region: Peptidase_S46; pfam10459 323850010120 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 323850010121 aromatic amino acid transport protein; Region: araaP; TIGR00837 323850010122 yybP-ykoY element as predicted by Rfam (RF00080), score 62.42 323850010123 Predicted membrane protein [Function unknown]; Region: COG2119 323850010124 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 323850010125 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 323850010126 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 323850010127 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 323850010128 tetramer interface [polypeptide binding]; other site 323850010129 heme binding pocket [chemical binding]; other site 323850010130 NADPH binding site [chemical binding]; other site 323850010131 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 323850010132 CoenzymeA binding site [chemical binding]; other site 323850010133 subunit interaction site [polypeptide binding]; other site 323850010134 PHB binding site; other site 323850010135 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 323850010136 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 323850010137 generic binding surface II; other site 323850010138 generic binding surface I; other site 323850010139 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 323850010140 putative catalytic site [active] 323850010141 putative metal binding site [ion binding]; other site 323850010142 putative phosphate binding site [ion binding]; other site 323850010143 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 323850010144 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 323850010145 DNA binding residues [nucleotide binding] 323850010146 dimerization interface [polypeptide binding]; other site 323850010147 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 323850010148 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 323850010149 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 323850010150 ligand binding site [chemical binding]; other site 323850010151 NAD binding site [chemical binding]; other site 323850010152 tetramer interface [polypeptide binding]; other site 323850010153 catalytic site [active] 323850010154 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 323850010155 L-serine binding site [chemical binding]; other site 323850010156 ACT domain interface; other site 323850010157 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 323850010158 putative global regulator; Reviewed; Region: PRK09559 323850010159 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 323850010160 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 323850010161 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 323850010162 active site 323850010163 phosphorylation site [posttranslational modification] 323850010164 intermolecular recognition site; other site 323850010165 dimerization interface [polypeptide binding]; other site 323850010166 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323850010167 Zn2+ binding site [ion binding]; other site 323850010168 Mg2+ binding site [ion binding]; other site 323850010169 Domain of unknown function (DUF4185); Region: DUF4185; pfam13810 323850010170 PAS domain; Region: PAS_9; pfam13426 323850010171 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 323850010172 PAS domain; Region: PAS_9; pfam13426 323850010173 putative active site [active] 323850010174 heme pocket [chemical binding]; other site 323850010175 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 323850010176 PAS fold; Region: PAS_3; pfam08447 323850010177 putative active site [active] 323850010178 heme pocket [chemical binding]; other site 323850010179 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 323850010180 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 323850010181 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 323850010182 putative active site [active] 323850010183 heme pocket [chemical binding]; other site 323850010184 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 323850010185 dimer interface [polypeptide binding]; other site 323850010186 phosphorylation site [posttranslational modification] 323850010187 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 323850010188 ATP binding site [chemical binding]; other site 323850010189 Mg2+ binding site [ion binding]; other site 323850010190 G-X-G motif; other site 323850010191 Response regulator receiver domain; Region: Response_reg; pfam00072 323850010192 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 323850010193 active site 323850010194 phosphorylation site [posttranslational modification] 323850010195 intermolecular recognition site; other site 323850010196 dimerization interface [polypeptide binding]; other site 323850010197 Response regulator receiver domain; Region: Response_reg; pfam00072 323850010198 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 323850010199 active site 323850010200 phosphorylation site [posttranslational modification] 323850010201 intermolecular recognition site; other site 323850010202 dimerization interface [polypeptide binding]; other site 323850010203 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 323850010204 putative binding surface; other site 323850010205 active site 323850010206 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323850010207 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 323850010208 Walker A/P-loop; other site 323850010209 ATP binding site [chemical binding]; other site 323850010210 Q-loop/lid; other site 323850010211 ABC transporter signature motif; other site 323850010212 Walker B; other site 323850010213 D-loop; other site 323850010214 H-loop/switch region; other site 323850010215 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 323850010216 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 323850010217 NapD protein; Region: NapD; pfam03927 323850010218 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 323850010219 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 323850010220 [4Fe-4S] binding site [ion binding]; other site 323850010221 molybdopterin cofactor binding site; other site 323850010222 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 323850010223 molybdopterin cofactor binding site; other site 323850010224 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 323850010225 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 323850010226 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 323850010227 4Fe-4S binding domain; Region: Fer4_5; pfam12801 323850010228 4Fe-4S binding domain; Region: Fer4_5; pfam12801 323850010229 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 323850010230 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 323850010231 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 323850010232 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 323850010233 putative C-terminal domain interface [polypeptide binding]; other site 323850010234 putative GSH binding site (G-site) [chemical binding]; other site 323850010235 putative dimer interface [polypeptide binding]; other site 323850010236 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 323850010237 N-terminal domain interface [polypeptide binding]; other site 323850010238 dimer interface [polypeptide binding]; other site 323850010239 substrate binding pocket (H-site) [chemical binding]; other site 323850010240 AAA domain; Region: AAA_33; pfam13671 323850010241 AAA domain; Region: AAA_17; pfam13207 323850010242 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 323850010243 dimer interface [polypeptide binding]; other site 323850010244 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323850010245 metal binding site [ion binding]; metal-binding site 323850010246 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 323850010247 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 323850010248 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323850010249 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 323850010250 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 323850010251 motif II; other site 323850010252 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 323850010253 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 323850010254 Ligand Binding Site [chemical binding]; other site 323850010255 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 323850010256 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 323850010257 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 323850010258 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 323850010259 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 323850010260 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323850010261 ATP-grasp domain; Region: ATP-grasp_4; cl17255 323850010262 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 323850010263 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 323850010264 carboxyltransferase (CT) interaction site; other site 323850010265 biotinylation site [posttranslational modification]; other site 323850010266 LysR family transcriptional regulator; Provisional; Region: PRK14997 323850010267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850010268 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 323850010269 putative effector binding pocket; other site 323850010270 dimerization interface [polypeptide binding]; other site 323850010271 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 323850010272 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cl00237 323850010273 putative substrate binding pocket [chemical binding]; other site 323850010274 AC domain interface; other site 323850010275 catalytic triad [active] 323850010276 AB domain interface; other site 323850010277 interchain disulfide; other site 323850010278 hypothetical protein; Provisional; Region: PRK04860 323850010279 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 323850010280 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 323850010281 RNA methyltransferase, RsmE family; Region: TIGR00046 323850010282 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 323850010283 glutathione synthetase; Provisional; Region: PRK05246 323850010284 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 323850010285 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 323850010286 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 323850010287 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 323850010288 dimer interface [polypeptide binding]; other site 323850010289 active site 323850010290 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850010291 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850010292 metal binding site [ion binding]; metal-binding site 323850010293 active site 323850010294 I-site; other site 323850010295 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 323850010296 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 323850010297 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 323850010298 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 323850010299 S-adenosylmethionine binding site [chemical binding]; other site 323850010300 Protein of unknown function (DUF342); Region: DUF342; pfam03961 323850010301 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 323850010302 Peptidase family M50; Region: Peptidase_M50; pfam02163 323850010303 active site 323850010304 putative substrate binding region [chemical binding]; other site 323850010305 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 323850010306 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 323850010307 ligand binding site [chemical binding]; other site 323850010308 flexible hinge region; other site 323850010309 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 323850010310 non-specific DNA interactions [nucleotide binding]; other site 323850010311 DNA binding site [nucleotide binding] 323850010312 sequence specific DNA binding site [nucleotide binding]; other site 323850010313 putative cAMP binding site [chemical binding]; other site 323850010314 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cd00110 323850010315 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 323850010316 dimer interface [polypeptide binding]; other site 323850010317 phosphorylation site [posttranslational modification] 323850010318 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 323850010319 ATP binding site [chemical binding]; other site 323850010320 Mg2+ binding site [ion binding]; other site 323850010321 G-X-G motif; other site 323850010322 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 323850010323 Cna protein B-type domain; Region: Cna_B_2; pfam13715 323850010324 Calx-beta domain; Region: Calx-beta; pfam03160 323850010325 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 323850010326 Cna protein B-type domain; Region: Cna_B_2; pfam13715 323850010327 Domains in Na-Ca exchangers and integrin-beta4; Region: Calx_beta; smart00237 323850010328 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 323850010329 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 323850010330 active site 323850010331 phosphorylation site [posttranslational modification] 323850010332 intermolecular recognition site; other site 323850010333 dimerization interface [polypeptide binding]; other site 323850010334 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 323850010335 DNA binding residues [nucleotide binding] 323850010336 dimerization interface [polypeptide binding]; other site 323850010337 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 323850010338 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 323850010339 N-terminal plug; other site 323850010340 ligand-binding site [chemical binding]; other site 323850010341 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850010342 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850010343 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 323850010344 dimerization interface [polypeptide binding]; other site 323850010345 tetrathionate reductase subunit A; Provisional; Region: PRK14991 323850010346 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 323850010347 molybdopterin cofactor binding site; other site 323850010348 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 323850010349 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 323850010350 putative molybdopterin cofactor binding site; other site 323850010351 tetrathionate reductase subunit B; Provisional; Region: PRK14993 323850010352 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 323850010353 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 323850010354 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 323850010355 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 323850010356 Superinfection exclusion protein B; Region: SieB; pfam14163 323850010357 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; cl01054 323850010358 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 323850010359 dimer interface [polypeptide binding]; other site 323850010360 phosphorylation site [posttranslational modification] 323850010361 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 323850010362 ATP binding site [chemical binding]; other site 323850010363 Mg2+ binding site [ion binding]; other site 323850010364 G-X-G motif; other site 323850010365 peptidase T; Region: peptidase-T; TIGR01882 323850010366 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 323850010367 metal binding site [ion binding]; metal-binding site 323850010368 dimer interface [polypeptide binding]; other site 323850010369 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 323850010370 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 323850010371 putative ATP binding site [chemical binding]; other site 323850010372 putative substrate interface [chemical binding]; other site 323850010373 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 323850010374 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 323850010375 eyelet of channel; other site 323850010376 trimer interface [polypeptide binding]; other site 323850010377 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 323850010378 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 323850010379 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 323850010380 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 323850010381 Multicopper oxidase; Region: Cu-oxidase; pfam00394 323850010382 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 323850010383 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 323850010384 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 323850010385 active site 323850010386 phosphorylation site [posttranslational modification] 323850010387 intermolecular recognition site; other site 323850010388 dimerization interface [polypeptide binding]; other site 323850010389 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 323850010390 DNA binding site [nucleotide binding] 323850010391 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 323850010392 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 323850010393 dimerization interface [polypeptide binding]; other site 323850010394 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 323850010395 dimer interface [polypeptide binding]; other site 323850010396 phosphorylation site [posttranslational modification] 323850010397 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 323850010398 ATP binding site [chemical binding]; other site 323850010399 Mg2+ binding site [ion binding]; other site 323850010400 G-X-G motif; other site 323850010401 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 323850010402 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 323850010403 eyelet of channel; other site 323850010404 trimer interface [polypeptide binding]; other site 323850010405 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 323850010406 Protein kinase domain; Region: Pkinase; pfam00069 323850010407 Catalytic domain of Protein Kinases; Region: PKc; cd00180 323850010408 active site 323850010409 ATP binding site [chemical binding]; other site 323850010410 substrate binding site [chemical binding]; other site 323850010411 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 323850010412 substrate binding site [chemical binding]; other site 323850010413 activation loop (A-loop); other site 323850010414 activation loop (A-loop); other site 323850010415 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 323850010416 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 323850010417 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 323850010418 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 323850010419 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 323850010420 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 323850010421 DsbD alpha interface [polypeptide binding]; other site 323850010422 catalytic residues [active] 323850010423 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 323850010424 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 323850010425 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 323850010426 TrkA-N domain; Region: TrkA_N; pfam02254 323850010427 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323850010428 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 323850010429 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 323850010430 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 323850010431 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 323850010432 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 323850010433 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 323850010434 Na binding site [ion binding]; other site 323850010435 galactokinase; Provisional; Region: PRK05101 323850010436 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 323850010437 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 323850010438 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 323850010439 active site 323850010440 catalytic residues [active] 323850010441 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 323850010442 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 323850010443 NAD(P) binding site [chemical binding]; other site 323850010444 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 323850010445 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 323850010446 Surface antigen; Region: Bac_surface_Ag; pfam01103 323850010447 alanine racemase; Reviewed; Region: alr; PRK00053 323850010448 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 323850010449 active site 323850010450 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323850010451 substrate binding site [chemical binding]; other site 323850010452 catalytic residues [active] 323850010453 dimer interface [polypeptide binding]; other site 323850010454 replicative DNA helicase; Provisional; Region: PRK08006 323850010455 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 323850010456 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 323850010457 Walker A motif; other site 323850010458 ATP binding site [chemical binding]; other site 323850010459 Walker B motif; other site 323850010460 DNA binding loops [nucleotide binding] 323850010461 Peptidase S46; Region: Peptidase_S46; pfam10459 323850010462 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 323850010463 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 323850010464 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 323850010465 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 323850010466 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 323850010467 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 323850010468 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 323850010469 Protein of unknown function, DUF481; Region: DUF481; pfam04338 323850010470 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 323850010471 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 323850010472 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 323850010473 exoribonuclease R; Provisional; Region: PRK11642 323850010474 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 323850010475 RNB domain; Region: RNB; pfam00773 323850010476 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 323850010477 RNA binding site [nucleotide binding]; other site 323850010478 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323850010479 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 323850010480 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 323850010481 GDP-binding site [chemical binding]; other site 323850010482 ACT binding site; other site 323850010483 IMP binding site; other site 323850010484 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 323850010485 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 323850010486 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 323850010487 23S rRNA interface [nucleotide binding]; other site 323850010488 L3 interface [polypeptide binding]; other site 323850010489 Predicted ATPase [General function prediction only]; Region: COG1485 323850010490 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 323850010491 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 323850010492 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 323850010493 protein binding site [polypeptide binding]; other site 323850010494 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 323850010495 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 323850010496 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 323850010497 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 323850010498 protein binding site [polypeptide binding]; other site 323850010499 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 323850010500 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 323850010501 hinge; other site 323850010502 active site 323850010503 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 323850010504 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 323850010505 anti sigma factor interaction site; other site 323850010506 regulatory phosphorylation site [posttranslational modification]; other site 323850010507 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 323850010508 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 323850010509 mce related protein; Region: MCE; pfam02470 323850010510 conserved hypothetical integral membrane protein; Region: TIGR00056 323850010511 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 323850010512 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 323850010513 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 323850010514 Walker A/P-loop; other site 323850010515 ATP binding site [chemical binding]; other site 323850010516 Q-loop/lid; other site 323850010517 ABC transporter signature motif; other site 323850010518 Walker B; other site 323850010519 D-loop; other site 323850010520 H-loop/switch region; other site 323850010521 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 323850010522 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 323850010523 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 323850010524 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 323850010525 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 323850010526 putative active site [active] 323850010527 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 323850010528 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 323850010529 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 323850010530 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 323850010531 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 323850010532 OstA-like protein; Region: OstA; cl00844 323850010533 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 323850010534 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 323850010535 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 323850010536 Walker A/P-loop; other site 323850010537 ATP binding site [chemical binding]; other site 323850010538 Q-loop/lid; other site 323850010539 ABC transporter signature motif; other site 323850010540 Walker B; other site 323850010541 D-loop; other site 323850010542 H-loop/switch region; other site 323850010543 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 323850010544 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 323850010545 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 323850010546 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 323850010547 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 323850010548 30S subunit binding site; other site 323850010549 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 323850010550 active site 323850010551 phosphorylation site [posttranslational modification] 323850010552 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 323850010553 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 323850010554 dimerization domain swap beta strand [polypeptide binding]; other site 323850010555 regulatory protein interface [polypeptide binding]; other site 323850010556 active site 323850010557 regulatory phosphorylation site [posttranslational modification]; other site 323850010558 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 323850010559 MgtE intracellular N domain; Region: MgtE_N; smart00924 323850010560 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 323850010561 Divalent cation transporter; Region: MgtE; cl00786 323850010562 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323850010563 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 323850010564 active site 323850010565 phosphorylation site [posttranslational modification] 323850010566 intermolecular recognition site; other site 323850010567 dimerization interface [polypeptide binding]; other site 323850010568 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 323850010569 DNA binding site [nucleotide binding] 323850010570 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323850010571 HAMP domain; Region: HAMP; pfam00672 323850010572 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 323850010573 dimer interface [polypeptide binding]; other site 323850010574 phosphorylation site [posttranslational modification] 323850010575 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 323850010576 ATP binding site [chemical binding]; other site 323850010577 G-X-G motif; other site 323850010578 Family description; Region: VCBS; pfam13517 323850010579 Family description; Region: VCBS; pfam13517 323850010580 Family description; Region: VCBS; pfam13517 323850010581 Family description; Region: VCBS; pfam13517 323850010582 Uncharacterized conserved protein [Function unknown]; Region: COG4121 323850010583 Predicted permeases [General function prediction only]; Region: RarD; COG2962 323850010584 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 323850010585 PGAP1-like protein; Region: PGAP1; pfam07819 323850010586 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 323850010587 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 323850010588 putative RNA binding site [nucleotide binding]; other site 323850010589 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 323850010590 S-adenosylmethionine binding site [chemical binding]; other site 323850010591 putative MFS family transporter protein; Provisional; Region: PRK03633 323850010592 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 323850010593 putative substrate translocation pore; other site 323850010594 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 323850010595 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 323850010596 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 323850010597 Beta-Casp domain; Region: Beta-Casp; smart01027 323850010598 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 323850010599 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 323850010600 BNR repeat-like domain; Region: BNR_2; pfam13088 323850010601 GAF domain; Region: GAF; pfam01590 323850010602 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850010603 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850010604 metal binding site [ion binding]; metal-binding site 323850010605 active site 323850010606 I-site; other site 323850010607 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 323850010608 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850010609 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850010610 metal binding site [ion binding]; metal-binding site 323850010611 active site 323850010612 I-site; other site 323850010613 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 323850010614 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 323850010615 ligand binding site [chemical binding]; other site 323850010616 flexible hinge region; other site 323850010617 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 323850010618 Protein of unknown function (DUF461); Region: DUF461; pfam04314 323850010619 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 323850010620 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 323850010621 Cu(I) binding site [ion binding]; other site 323850010622 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 323850010623 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 323850010624 Multicopper oxidase; Region: Cu-oxidase; pfam00394 323850010625 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 323850010626 MarR family; Region: MarR; pfam01047 323850010627 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 323850010628 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 323850010629 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 323850010630 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 323850010631 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 323850010632 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 323850010633 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850010634 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850010635 metal binding site [ion binding]; metal-binding site 323850010636 active site 323850010637 I-site; other site 323850010638 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 323850010639 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 323850010640 active site 323850010641 phosphorylation site [posttranslational modification] 323850010642 intermolecular recognition site; other site 323850010643 dimerization interface [polypeptide binding]; other site 323850010644 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323850010645 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 323850010646 ATP binding site [chemical binding]; other site 323850010647 Mg2+ binding site [ion binding]; other site 323850010648 G-X-G motif; other site 323850010649 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 323850010650 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 323850010651 NADP binding site [chemical binding]; other site 323850010652 active site 323850010653 putative substrate binding site [chemical binding]; other site 323850010654 lipid kinase; Reviewed; Region: PRK13054 323850010655 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 323850010656 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 323850010657 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 323850010658 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 323850010659 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 323850010660 metal binding site [ion binding]; metal-binding site 323850010661 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 323850010662 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 323850010663 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 323850010664 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 323850010665 active site 323850010666 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 323850010667 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 323850010668 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 323850010669 Domain of unknown function (DUF386); Region: DUF386; cl01047 323850010670 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 323850010671 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 323850010672 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323850010673 catalytic residue [active] 323850010674 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 323850010675 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 323850010676 active site residue [active] 323850010677 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 323850010678 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323850010679 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323850010680 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850010681 Outer membrane efflux protein; Region: OEP; pfam02321 323850010682 Outer membrane efflux protein; Region: OEP; pfam02321 323850010683 Protein of unknown function (DUF3012); Region: DUF3012; pfam11216 323850010684 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 323850010685 hypothetical protein; Provisional; Region: PRK09256 323850010686 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 323850010687 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 323850010688 Dehydroquinase class II; Region: DHquinase_II; pfam01220 323850010689 active site 323850010690 trimer interface [polypeptide binding]; other site 323850010691 dimer interface [polypeptide binding]; other site 323850010692 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 323850010693 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 323850010694 carboxyltransferase (CT) interaction site; other site 323850010695 biotinylation site [posttranslational modification]; other site 323850010696 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 323850010697 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323850010698 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 323850010699 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 323850010700 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 323850010701 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 323850010702 substrate binding pocket [chemical binding]; other site 323850010703 membrane-bound complex binding site; other site 323850010704 hinge residues; other site 323850010705 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; cl01054 323850010706 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323850010707 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 323850010708 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 323850010709 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 323850010710 active site 323850010711 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 323850010712 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 323850010713 putative active site [active] 323850010714 putative metal binding site [ion binding]; other site 323850010715 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 323850010716 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 323850010717 S-adenosylmethionine binding site [chemical binding]; other site 323850010718 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 323850010719 SCP-2 sterol transfer family; Region: SCP2; pfam02036 323850010720 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 323850010721 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 323850010722 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 323850010723 sec-independent translocase; Provisional; Region: PRK01770 323850010724 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 323850010725 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 323850010726 active site 323850010727 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 323850010728 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 323850010729 hypothetical protein; Region: PHA02277 323850010730 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850010731 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850010732 metal binding site [ion binding]; metal-binding site 323850010733 active site 323850010734 I-site; other site 323850010735 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 323850010736 dimer interface [polypeptide binding]; other site 323850010737 allosteric magnesium binding site [ion binding]; other site 323850010738 active site 323850010739 aspartate-rich active site metal binding site; other site 323850010740 Schiff base residues; other site 323850010741 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 323850010742 UbiA prenyltransferase family; Region: UbiA; pfam01040 323850010743 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 323850010744 Part of AAA domain; Region: AAA_19; pfam13245 323850010745 Family description; Region: UvrD_C_2; pfam13538 323850010746 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 323850010747 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 323850010748 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 323850010749 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 323850010750 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 323850010751 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 323850010752 uridine phosphorylase; Provisional; Region: PRK11178 323850010753 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 323850010754 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 323850010755 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 323850010756 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 323850010757 dimer interface [polypeptide binding]; other site 323850010758 active site 323850010759 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323850010760 catalytic residues [active] 323850010761 substrate binding site [chemical binding]; other site 323850010762 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 323850010763 Mechanosensitive ion channel; Region: MS_channel; pfam00924 323850010764 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 323850010765 Radical SAM superfamily; Region: Radical_SAM; pfam04055 323850010766 FeS/SAM binding site; other site 323850010767 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850010768 Coenzyme A binding pocket [chemical binding]; other site 323850010769 Cytochrome c553 [Energy production and conversion]; Region: COG2863 323850010770 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 323850010771 4Fe-4S binding domain; Region: Fer4_5; pfam12801 323850010772 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 323850010773 4Fe-4S binding domain; Region: Fer4_5; pfam12801 323850010774 nitrous-oxide reductase; Validated; Region: PRK02888 323850010775 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 323850010776 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 323850010777 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 323850010778 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 323850010779 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 323850010780 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 323850010781 Walker A/P-loop; other site 323850010782 ATP binding site [chemical binding]; other site 323850010783 Q-loop/lid; other site 323850010784 ABC transporter signature motif; other site 323850010785 Walker B; other site 323850010786 D-loop; other site 323850010787 H-loop/switch region; other site 323850010788 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 323850010789 NosL; Region: NosL; pfam05573 323850010790 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 323850010791 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 323850010792 putative substrate translocation pore; other site 323850010793 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 323850010794 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 323850010795 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323850010796 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850010797 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850010798 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850010799 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 323850010800 putative effector binding pocket; other site 323850010801 dimerization interface [polypeptide binding]; other site 323850010802 hypothetical protein; Provisional; Region: PRK12378 323850010803 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 323850010804 Predicted permease; Region: DUF318; cl17795 323850010805 Predicted permease; Region: DUF318; cl17795 323850010806 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 323850010807 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 323850010808 DNA binding residues [nucleotide binding] 323850010809 dimer interface [polypeptide binding]; other site 323850010810 metal binding site [ion binding]; metal-binding site 323850010811 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 323850010812 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 323850010813 purine monophosphate binding site [chemical binding]; other site 323850010814 dimer interface [polypeptide binding]; other site 323850010815 putative catalytic residues [active] 323850010816 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 323850010817 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 323850010818 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 323850010819 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 323850010820 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 323850010821 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 323850010822 11beta-hydroxysteroid dehydrogenase type 1 (11beta-HSD1)-like, classical (c) SDRs; Region: 11beta-HSD1_like_SDR_c; cd05332 323850010823 short chain dehydrogenase; Provisional; Region: PRK06181 323850010824 NADP binding site [chemical binding]; other site 323850010825 homodimer interface [polypeptide binding]; other site 323850010826 substrate binding site [chemical binding]; other site 323850010827 active site 323850010828 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 323850010829 PAS domain; Region: PAS_9; pfam13426 323850010830 putative active site [active] 323850010831 heme pocket [chemical binding]; other site 323850010832 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850010833 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850010834 metal binding site [ion binding]; metal-binding site 323850010835 active site 323850010836 I-site; other site 323850010837 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 323850010838 Spondin_N; Region: Spond_N; pfam06468 323850010839 Spondin_N; Region: Spond_N; pfam06468 323850010840 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323850010841 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 323850010842 active site 323850010843 phosphorylation site [posttranslational modification] 323850010844 intermolecular recognition site; other site 323850010845 dimerization interface [polypeptide binding]; other site 323850010846 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 323850010847 DNA binding site [nucleotide binding] 323850010848 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323850010849 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 323850010850 dimer interface [polypeptide binding]; other site 323850010851 phosphorylation site [posttranslational modification] 323850010852 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 323850010853 ATP binding site [chemical binding]; other site 323850010854 Mg2+ binding site [ion binding]; other site 323850010855 G-X-G motif; other site 323850010856 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 323850010857 substrate binding site [chemical binding]; other site 323850010858 active site 323850010859 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 323850010860 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 323850010861 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 323850010862 substrate binding site [chemical binding]; other site 323850010863 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 323850010864 substrate binding site [chemical binding]; other site 323850010865 ligand binding site [chemical binding]; other site 323850010866 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 323850010867 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 323850010868 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 323850010869 motif II; other site 323850010870 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 323850010871 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 323850010872 active site 323850010873 Zn binding site [ion binding]; other site 323850010874 hypothetical protein; Provisional; Region: PRK10279 323850010875 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 323850010876 nucleophile elbow; other site 323850010877 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323850010878 Surface antigen; Region: Bac_surface_Ag; pfam01103 323850010879 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 323850010880 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 323850010881 PAS domain; Region: PAS_9; pfam13426 323850010882 putative active site [active] 323850010883 heme pocket [chemical binding]; other site 323850010884 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850010885 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850010886 metal binding site [ion binding]; metal-binding site 323850010887 active site 323850010888 I-site; other site 323850010889 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 323850010890 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 323850010891 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 323850010892 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323850010893 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 323850010894 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 323850010895 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 323850010896 E3 interaction surface; other site 323850010897 lipoyl attachment site [posttranslational modification]; other site 323850010898 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 323850010899 E3 interaction surface; other site 323850010900 lipoyl attachment site [posttranslational modification]; other site 323850010901 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 323850010902 E3 interaction surface; other site 323850010903 lipoyl attachment site [posttranslational modification]; other site 323850010904 e3 binding domain; Region: E3_binding; pfam02817 323850010905 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 323850010906 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 323850010907 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 323850010908 dimer interface [polypeptide binding]; other site 323850010909 TPP-binding site [chemical binding]; other site 323850010910 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 323850010911 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 323850010912 DNA-binding site [nucleotide binding]; DNA binding site 323850010913 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 323850010914 regulatory protein AmpE; Provisional; Region: PRK10987 323850010915 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 323850010916 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 323850010917 amidase catalytic site [active] 323850010918 Zn binding residues [ion binding]; other site 323850010919 substrate binding site [chemical binding]; other site 323850010920 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 323850010921 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 323850010922 dimerization interface [polypeptide binding]; other site 323850010923 active site 323850010924 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 323850010925 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 323850010926 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 323850010927 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 323850010928 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 323850010929 Walker A motif; other site 323850010930 ATP binding site [chemical binding]; other site 323850010931 Walker B motif; other site 323850010932 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 323850010933 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323850010934 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323850010935 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 323850010936 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 323850010937 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 323850010938 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 323850010939 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 323850010940 CoA-binding site [chemical binding]; other site 323850010941 ATP-binding [chemical binding]; other site 323850010942 hypothetical protein; Provisional; Region: PRK05287 323850010943 Domain of unknown function (DUF329); Region: DUF329; pfam03884 323850010944 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 323850010945 active site 323850010946 8-oxo-dGMP binding site [chemical binding]; other site 323850010947 nudix motif; other site 323850010948 metal binding site [ion binding]; metal-binding site 323850010949 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 323850010950 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 323850010951 SEC-C motif; Region: SEC-C; pfam02810 323850010952 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 323850010953 Peptidase family M23; Region: Peptidase_M23; pfam01551 323850010954 Protein of unknown function (DUF721); Region: DUF721; cl02324 323850010955 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 323850010956 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 323850010957 cell division protein FtsZ; Validated; Region: PRK09330 323850010958 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 323850010959 nucleotide binding site [chemical binding]; other site 323850010960 SulA interaction site; other site 323850010961 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 323850010962 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 323850010963 nucleotide binding site [chemical binding]; other site 323850010964 Cell division protein FtsA; Region: FtsA; pfam14450 323850010965 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 323850010966 Cell division protein FtsQ; Region: FtsQ; pfam03799 323850010967 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 323850010968 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 323850010969 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323850010970 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323850010971 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 323850010972 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 323850010973 active site 323850010974 homodimer interface [polypeptide binding]; other site 323850010975 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 323850010976 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 323850010977 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323850010978 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323850010979 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 323850010980 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 323850010981 Mg++ binding site [ion binding]; other site 323850010982 putative catalytic motif [active] 323850010983 putative substrate binding site [chemical binding]; other site 323850010984 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 323850010985 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 323850010986 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323850010987 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323850010988 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 323850010989 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 323850010990 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323850010991 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323850010992 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 323850010993 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 323850010994 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 323850010995 Cell division protein FtsL; Region: FtsL; pfam04999 323850010996 MraW methylase family; Region: Methyltransf_5; pfam01795 323850010997 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 323850010998 cell division protein MraZ; Reviewed; Region: PRK00326 323850010999 MraZ protein; Region: MraZ; pfam02381 323850011000 MraZ protein; Region: MraZ; pfam02381 323850011001 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 323850011002 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 323850011003 glycerol kinase; Provisional; Region: glpK; PRK00047 323850011004 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 323850011005 N- and C-terminal domain interface [polypeptide binding]; other site 323850011006 active site 323850011007 MgATP binding site [chemical binding]; other site 323850011008 catalytic site [active] 323850011009 metal binding site [ion binding]; metal-binding site 323850011010 glycerol binding site [chemical binding]; other site 323850011011 homotetramer interface [polypeptide binding]; other site 323850011012 homodimer interface [polypeptide binding]; other site 323850011013 FBP binding site [chemical binding]; other site 323850011014 protein IIAGlc interface [polypeptide binding]; other site 323850011015 SnoaL-like domain; Region: SnoaL_2; pfam12680 323850011016 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 323850011017 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 323850011018 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 323850011019 substrate binding site [chemical binding]; other site 323850011020 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 323850011021 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 323850011022 substrate binding site [chemical binding]; other site 323850011023 ligand binding site [chemical binding]; other site 323850011024 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 323850011025 2-isopropylmalate synthase; Validated; Region: PRK00915 323850011026 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 323850011027 active site 323850011028 catalytic residues [active] 323850011029 metal binding site [ion binding]; metal-binding site 323850011030 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 323850011031 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850011032 active site 323850011033 I-site; other site 323850011034 metal binding site [ion binding]; metal-binding site 323850011035 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 323850011036 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 323850011037 ATP binding site [chemical binding]; other site 323850011038 putative Mg++ binding site [ion binding]; other site 323850011039 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 323850011040 nucleotide binding region [chemical binding]; other site 323850011041 ATP-binding site [chemical binding]; other site 323850011042 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 323850011043 HRDC domain; Region: HRDC; pfam00570 323850011044 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 323850011045 CoenzymeA binding site [chemical binding]; other site 323850011046 subunit interaction site [polypeptide binding]; other site 323850011047 PHB binding site; other site 323850011048 Predicted permeases [General function prediction only]; Region: RarD; COG2962 323850011049 EamA-like transporter family; Region: EamA; pfam00892 323850011050 N-acetylglutamate synthase; Validated; Region: PRK05279 323850011051 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 323850011052 putative feedback inhibition sensing region; other site 323850011053 putative nucleotide binding site [chemical binding]; other site 323850011054 putative substrate binding site [chemical binding]; other site 323850011055 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850011056 Coenzyme A binding pocket [chemical binding]; other site 323850011057 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 323850011058 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 323850011059 hypothetical protein; Reviewed; Region: PRK00024 323850011060 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 323850011061 MPN+ (JAMM) motif; other site 323850011062 Zinc-binding site [ion binding]; other site 323850011063 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 323850011064 Flavoprotein; Region: Flavoprotein; pfam02441 323850011065 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 323850011066 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 323850011067 trimer interface [polypeptide binding]; other site 323850011068 active site 323850011069 division inhibitor protein; Provisional; Region: slmA; PRK09480 323850011070 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323850011071 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 323850011072 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323850011073 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 323850011074 GTP cyclohydrolase I; Provisional; Region: PLN03044 323850011075 active site 323850011076 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323850011077 active site 323850011078 ribonuclease PH; Reviewed; Region: rph; PRK00173 323850011079 Ribonuclease PH; Region: RNase_PH_bact; cd11362 323850011080 hexamer interface [polypeptide binding]; other site 323850011081 active site 323850011082 hypothetical protein; Provisional; Region: PRK11820 323850011083 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 323850011084 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 323850011085 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 323850011086 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 323850011087 non-specific DNA binding site [nucleotide binding]; other site 323850011088 salt bridge; other site 323850011089 sequence-specific DNA binding site [nucleotide binding]; other site 323850011090 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 323850011091 Uncharacterized conserved protein [Function unknown]; Region: COG3410 323850011092 Paraquat-inducible protein A; Region: PqiA; pfam04403 323850011093 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 323850011094 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 323850011095 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 323850011096 Phosphotransferase enzyme family; Region: APH; pfam01636 323850011097 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 323850011098 active site 323850011099 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 323850011100 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 323850011101 catalytic site [active] 323850011102 G-X2-G-X-G-K; other site 323850011103 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 323850011104 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 323850011105 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323850011106 Zn2+ binding site [ion binding]; other site 323850011107 Mg2+ binding site [ion binding]; other site 323850011108 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 323850011109 synthetase active site [active] 323850011110 NTP binding site [chemical binding]; other site 323850011111 metal binding site [ion binding]; metal-binding site 323850011112 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 323850011113 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 323850011114 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 323850011115 homotrimer interaction site [polypeptide binding]; other site 323850011116 putative active site [active] 323850011117 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 323850011118 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 323850011119 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 323850011120 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 323850011121 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 323850011122 acyl-activating enzyme (AAE) consensus motif; other site 323850011123 putative AMP binding site [chemical binding]; other site 323850011124 putative active site [active] 323850011125 putative CoA binding site [chemical binding]; other site 323850011126 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 323850011127 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 323850011128 Proline racemase; Region: Pro_racemase; pfam05544 323850011129 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 323850011130 Histidine kinase; Region: HisKA_3; pfam07730 323850011131 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 323850011132 ATP binding site [chemical binding]; other site 323850011133 Mg2+ binding site [ion binding]; other site 323850011134 G-X-G motif; other site 323850011135 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 323850011136 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 323850011137 active site 323850011138 phosphorylation site [posttranslational modification] 323850011139 intermolecular recognition site; other site 323850011140 dimerization interface [polypeptide binding]; other site 323850011141 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 323850011142 DNA binding residues [nucleotide binding] 323850011143 dimerization interface [polypeptide binding]; other site 323850011144 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 323850011145 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 323850011146 generic binding surface II; other site 323850011147 ssDNA binding site; other site 323850011148 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 323850011149 ATP binding site [chemical binding]; other site 323850011150 putative Mg++ binding site [ion binding]; other site 323850011151 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 323850011152 nucleotide binding region [chemical binding]; other site 323850011153 ATP-binding site [chemical binding]; other site 323850011154 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 323850011155 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 323850011156 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 323850011157 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 323850011158 putative acyl-acceptor binding pocket; other site 323850011159 Phosphopantetheine attachment site; Region: PP-binding; cl09936 323850011160 acyl carrier protein; Provisional; Region: PRK05350 323850011161 Predicted membrane protein [Function unknown]; Region: COG4648 323850011162 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 323850011163 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 323850011164 acyl-activating enzyme (AAE) consensus motif; other site 323850011165 AMP binding site [chemical binding]; other site 323850011166 active site 323850011167 CoA binding site [chemical binding]; other site 323850011168 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 323850011169 active site 2 [active] 323850011170 dimer interface [polypeptide binding]; other site 323850011171 active site 1 [active] 323850011172 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 323850011173 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 323850011174 Ligand binding site; other site 323850011175 Putative Catalytic site; other site 323850011176 DXD motif; other site 323850011177 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 323850011178 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 323850011179 putative acyl-acceptor binding pocket; other site 323850011180 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 323850011181 active sites [active] 323850011182 tetramer interface [polypeptide binding]; other site 323850011183 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 323850011184 active site 323850011185 Predicted exporter [General function prediction only]; Region: COG4258 323850011186 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 323850011187 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 323850011188 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 323850011189 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 323850011190 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 323850011191 dimer interface [polypeptide binding]; other site 323850011192 active site 323850011193 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 323850011194 putative active site 1 [active] 323850011195 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 323850011196 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 323850011197 NAD(P) binding site [chemical binding]; other site 323850011198 homotetramer interface [polypeptide binding]; other site 323850011199 homodimer interface [polypeptide binding]; other site 323850011200 active site 323850011201 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 323850011202 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 323850011203 dimer interface [polypeptide binding]; other site 323850011204 active site 323850011205 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850011206 Coenzyme A binding pocket [chemical binding]; other site 323850011207 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 323850011208 active site residue [active] 323850011209 azoreductase; Reviewed; Region: PRK00170 323850011210 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 323850011211 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 323850011212 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 323850011213 putative acyl-acceptor binding pocket; other site 323850011214 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 323850011215 aromatic amino acid transport protein; Region: araaP; TIGR00837 323850011216 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 323850011217 heme-binding site [chemical binding]; other site 323850011218 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 323850011219 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323850011220 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 323850011221 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323850011222 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 323850011223 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323850011224 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850011225 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 323850011226 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 323850011227 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 323850011228 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 323850011229 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 323850011230 putative active site [active] 323850011231 dimerization interface [polypeptide binding]; other site 323850011232 putative tRNAtyr binding site [nucleotide binding]; other site 323850011233 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 323850011234 hypothetical protein; Reviewed; Region: PRK01637 323850011235 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 323850011236 4Fe-4S binding domain; Region: Fer4_5; pfam12801 323850011237 4Fe-4S binding domain; Region: Fer4_5; pfam12801 323850011238 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 323850011239 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 323850011240 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 323850011241 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 323850011242 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 323850011243 putative substrate translocation pore; other site 323850011244 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323850011245 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323850011246 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323850011247 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 323850011248 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 323850011249 G1 box; other site 323850011250 putative GEF interaction site [polypeptide binding]; other site 323850011251 GTP/Mg2+ binding site [chemical binding]; other site 323850011252 Switch I region; other site 323850011253 G2 box; other site 323850011254 G3 box; other site 323850011255 Switch II region; other site 323850011256 G4 box; other site 323850011257 G5 box; other site 323850011258 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 323850011259 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 323850011260 glutamine synthetase; Provisional; Region: glnA; PRK09469 323850011261 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 323850011262 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 323850011263 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 323850011264 putative active site [active] 323850011265 Zn binding site [ion binding]; other site 323850011266 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 323850011267 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 323850011268 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323850011269 catalytic residue [active] 323850011270 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 323850011271 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 323850011272 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 323850011273 putative DNA binding site [nucleotide binding]; other site 323850011274 putative Zn2+ binding site [ion binding]; other site 323850011275 AsnC family; Region: AsnC_trans_reg; pfam01037 323850011276 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 323850011277 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 323850011278 PAS domain; Region: PAS; smart00091 323850011279 putative active site [active] 323850011280 heme pocket [chemical binding]; other site 323850011281 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 323850011282 dimer interface [polypeptide binding]; other site 323850011283 phosphorylation site [posttranslational modification] 323850011284 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 323850011285 ATP binding site [chemical binding]; other site 323850011286 Mg2+ binding site [ion binding]; other site 323850011287 G-X-G motif; other site 323850011288 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 323850011289 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 323850011290 active site 323850011291 phosphorylation site [posttranslational modification] 323850011292 intermolecular recognition site; other site 323850011293 dimerization interface [polypeptide binding]; other site 323850011294 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 323850011295 Walker A motif; other site 323850011296 ATP binding site [chemical binding]; other site 323850011297 Walker B motif; other site 323850011298 arginine finger; other site 323850011299 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323850011300 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850011301 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850011302 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 323850011303 putative dimerization interface [polypeptide binding]; other site 323850011304 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 323850011305 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323850011306 Protein export membrane protein; Region: SecD_SecF; cl14618 323850011307 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323850011308 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323850011309 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323850011310 Cation efflux family; Region: Cation_efflux; cl00316 323850011311 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 323850011312 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 323850011313 dimer interface [polypeptide binding]; other site 323850011314 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 323850011315 active site 323850011316 phosphorylation site [posttranslational modification] 323850011317 intermolecular recognition site; other site 323850011318 dimerization interface [polypeptide binding]; other site 323850011319 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 323850011320 DNA binding site [nucleotide binding] 323850011321 two-component sensor protein; Provisional; Region: cpxA; PRK09470 323850011322 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 323850011323 dimerization interface [polypeptide binding]; other site 323850011324 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 323850011325 ATP binding site [chemical binding]; other site 323850011326 Mg2+ binding site [ion binding]; other site 323850011327 G-X-G motif; other site 323850011328 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 323850011329 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 323850011330 NADP binding site [chemical binding]; other site 323850011331 dimer interface [polypeptide binding]; other site 323850011332 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 323850011333 GAF domain; Region: GAF; pfam01590 323850011334 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 323850011335 Walker A motif; other site 323850011336 ATP binding site [chemical binding]; other site 323850011337 Walker B motif; other site 323850011338 arginine finger; other site 323850011339 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323850011340 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 323850011341 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 323850011342 NAD(P) binding site [chemical binding]; other site 323850011343 catalytic residues [active] 323850011344 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 323850011345 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 323850011346 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 323850011347 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 323850011348 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 323850011349 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 323850011350 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 323850011351 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 323850011352 Flagellar protein YcgR; Region: YcgR_2; pfam12945 323850011353 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323850011354 Methyltransferase domain; Region: Methyltransf_12; pfam08242 323850011355 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 323850011356 PAS domain; Region: PAS_9; pfam13426 323850011357 putative active site [active] 323850011358 heme pocket [chemical binding]; other site 323850011359 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850011360 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850011361 metal binding site [ion binding]; metal-binding site 323850011362 active site 323850011363 I-site; other site 323850011364 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 323850011365 DTW domain; Region: DTW; cl01221 323850011366 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 323850011367 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 323850011368 putative substrate translocation pore; other site 323850011369 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 323850011370 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850011371 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 323850011372 substrate binding pocket [chemical binding]; other site 323850011373 dimerization interface [polypeptide binding]; other site 323850011374 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 323850011375 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323850011376 Sel1-like repeats; Region: SEL1; smart00671 323850011377 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 323850011378 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 323850011379 putative metal binding site [ion binding]; other site 323850011380 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323850011381 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 323850011382 S-adenosylmethionine binding site [chemical binding]; other site 323850011383 putative transporter; Provisional; Region: PRK11021 323850011384 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 323850011385 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 323850011386 dimerization interface [polypeptide binding]; other site 323850011387 putative DNA binding site [nucleotide binding]; other site 323850011388 putative Zn2+ binding site [ion binding]; other site 323850011389 AsnC family; Region: AsnC_trans_reg; pfam01037 323850011390 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 323850011391 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 323850011392 dimer interface [polypeptide binding]; other site 323850011393 tetramer interface [polypeptide binding]; other site 323850011394 PYR/PP interface [polypeptide binding]; other site 323850011395 TPP binding site [chemical binding]; other site 323850011396 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 323850011397 TPP-binding site; other site 323850011398 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 323850011399 O-succinylbenzoate synthase; Provisional; Region: PRK05105 323850011400 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 323850011401 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 323850011402 active site 323850011403 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 323850011404 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 323850011405 acyl-activating enzyme (AAE) consensus motif; other site 323850011406 putative AMP binding site [chemical binding]; other site 323850011407 putative active site [active] 323850011408 putative CoA binding site [chemical binding]; other site 323850011409 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 323850011410 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323850011411 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 323850011412 DNA binding residues [nucleotide binding] 323850011413 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 323850011414 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 323850011415 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 323850011416 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323850011417 Walker A/P-loop; other site 323850011418 ATP binding site [chemical binding]; other site 323850011419 Q-loop/lid; other site 323850011420 ABC transporter signature motif; other site 323850011421 Walker B; other site 323850011422 D-loop; other site 323850011423 H-loop/switch region; other site 323850011424 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 323850011425 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 323850011426 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 323850011427 P loop; other site 323850011428 GTP binding site [chemical binding]; other site 323850011429 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 323850011430 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 323850011431 S-adenosylmethionine binding site [chemical binding]; other site 323850011432 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 323850011433 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 323850011434 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 323850011435 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 323850011436 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 323850011437 GspL periplasmic domain; Region: GspL_C; pfam12693 323850011438 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 323850011439 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 323850011440 type II secretion system protein J; Region: gspJ; TIGR01711 323850011441 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 323850011442 type II secretion system protein I; Region: gspI; TIGR01707 323850011443 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 323850011444 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 323850011445 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 323850011446 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 323850011447 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 323850011448 type II secretion system protein F; Region: GspF; TIGR02120 323850011449 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323850011450 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323850011451 type II secretion system protein E; Region: type_II_gspE; TIGR02533 323850011452 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 323850011453 Walker A motif; other site 323850011454 ATP binding site [chemical binding]; other site 323850011455 Walker B motif; other site 323850011456 type II secretion system protein D; Region: type_II_gspD; TIGR02517 323850011457 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 323850011458 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 323850011459 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 323850011460 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 323850011461 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 323850011462 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 323850011463 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 323850011464 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 323850011465 RNA binding surface [nucleotide binding]; other site 323850011466 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 323850011467 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 323850011468 dimerization interface [polypeptide binding]; other site 323850011469 domain crossover interface; other site 323850011470 redox-dependent activation switch; other site 323850011471 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 323850011472 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_ATP; cd00484 323850011473 active site 323850011474 substrate-binding site [chemical binding]; other site 323850011475 metal-binding site [ion binding] 323850011476 ATP binding site [chemical binding]; other site 323850011477 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 323850011478 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 323850011479 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 323850011480 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 323850011481 non-specific DNA binding site [nucleotide binding]; other site 323850011482 salt bridge; other site 323850011483 sequence-specific DNA binding site [nucleotide binding]; other site 323850011484 MgtC family; Region: MgtC; pfam02308 323850011485 DNA utilization protein GntX; Provisional; Region: PRK11595 323850011486 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323850011487 active site 323850011488 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 323850011489 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 323850011490 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 323850011491 Sulfatase; Region: Sulfatase; pfam00884 323850011492 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 323850011493 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 323850011494 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 323850011495 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 323850011496 RNA binding site [nucleotide binding]; other site 323850011497 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 323850011498 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 323850011499 dimer interface [polypeptide binding]; other site 323850011500 PYR/PP interface [polypeptide binding]; other site 323850011501 TPP binding site [chemical binding]; other site 323850011502 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 323850011503 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 323850011504 TPP-binding site [chemical binding]; other site 323850011505 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 323850011506 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 323850011507 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 323850011508 osmolarity response regulator; Provisional; Region: ompR; PRK09468 323850011509 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 323850011510 active site 323850011511 phosphorylation site [posttranslational modification] 323850011512 intermolecular recognition site; other site 323850011513 dimerization interface [polypeptide binding]; other site 323850011514 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 323850011515 DNA binding site [nucleotide binding] 323850011516 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 323850011517 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 323850011518 dimerization interface [polypeptide binding]; other site 323850011519 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 323850011520 dimer interface [polypeptide binding]; other site 323850011521 phosphorylation site [posttranslational modification] 323850011522 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 323850011523 ATP binding site [chemical binding]; other site 323850011524 Mg2+ binding site [ion binding]; other site 323850011525 G-X-G motif; other site 323850011526 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 323850011527 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; cl01054 323850011528 dimerization interface [polypeptide binding]; other site 323850011529 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323850011530 dimer interface [polypeptide binding]; other site 323850011531 putative CheW interface [polypeptide binding]; other site 323850011532 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 323850011533 catalytic triad [active] 323850011534 dimer interface [polypeptide binding]; other site 323850011535 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 323850011536 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 323850011537 S-adenosylmethionine binding site [chemical binding]; other site 323850011538 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 323850011539 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 323850011540 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 323850011541 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 323850011542 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323850011543 catalytic residue [active] 323850011544 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 323850011545 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 323850011546 AbgT putative transporter family; Region: ABG_transport; pfam03806 323850011547 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 323850011548 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850011549 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850011550 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 323850011551 dimerization interface [polypeptide binding]; other site 323850011552 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323850011553 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 323850011554 active site 323850011555 metal binding site [ion binding]; metal-binding site 323850011556 oligopeptidase A; Provisional; Region: PRK10911 323850011557 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 323850011558 active site 323850011559 Zn binding site [ion binding]; other site 323850011560 glutathione reductase; Validated; Region: PRK06116 323850011561 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 323850011562 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323850011563 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 323850011564 CrcB-like protein; Region: CRCB; cl09114 323850011565 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 323850011566 RimK-like ATP-grasp domain; Region: RimK; pfam08443 323850011567 Predicted deacylase [General function prediction only]; Region: COG3608 323850011568 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 323850011569 putative active site [active] 323850011570 Zn binding site [ion binding]; other site 323850011571 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 323850011572 MgtE intracellular N domain; Region: MgtE_N; smart00924 323850011573 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 323850011574 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 323850011575 Divalent cation transporter; Region: MgtE; cl00786 323850011576 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 323850011577 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 323850011578 conserved cys residue [active] 323850011579 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 323850011580 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 323850011581 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323850011582 Zn2+ binding site [ion binding]; other site 323850011583 Mg2+ binding site [ion binding]; other site 323850011584 Cobalt transport protein; Region: CbiQ; cl00463 323850011585 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 323850011586 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 323850011587 Walker A/P-loop; other site 323850011588 ATP binding site [chemical binding]; other site 323850011589 Q-loop/lid; other site 323850011590 ABC transporter signature motif; other site 323850011591 Walker B; other site 323850011592 D-loop; other site 323850011593 H-loop/switch region; other site 323850011594 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323850011595 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 323850011596 Walker A/P-loop; other site 323850011597 ATP binding site [chemical binding]; other site 323850011598 Q-loop/lid; other site 323850011599 ABC transporter signature motif; other site 323850011600 Walker B; other site 323850011601 D-loop; other site 323850011602 H-loop/switch region; other site 323850011603 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 323850011604 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 323850011605 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 323850011606 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 323850011607 chorismate binding enzyme; Region: Chorismate_bind; cl10555 323850011608 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 323850011609 membrane-bound complex binding site; other site 323850011610 hinge residues; other site 323850011611 hypothetical protein; Provisional; Region: PRK11212 323850011612 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323850011613 Coenzyme A binding pocket [chemical binding]; other site 323850011614 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; cl01054 323850011615 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 323850011616 dimer interface [polypeptide binding]; other site 323850011617 phosphorylation site [posttranslational modification] 323850011618 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 323850011619 ATP binding site [chemical binding]; other site 323850011620 G-X-G motif; other site 323850011621 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 323850011622 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 323850011623 active site 323850011624 phosphorylation site [posttranslational modification] 323850011625 intermolecular recognition site; other site 323850011626 dimerization interface [polypeptide binding]; other site 323850011627 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 323850011628 Walker A motif; other site 323850011629 ATP binding site [chemical binding]; other site 323850011630 Walker B motif; other site 323850011631 arginine finger; other site 323850011632 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323850011633 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 323850011634 PBP superfamily domain; Region: PBP_like_2; pfam12849 323850011635 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323850011636 dimer interface [polypeptide binding]; other site 323850011637 conserved gate region; other site 323850011638 putative PBP binding loops; other site 323850011639 ABC-ATPase subunit interface; other site 323850011640 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 323850011641 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323850011642 Walker A/P-loop; other site 323850011643 ATP binding site [chemical binding]; other site 323850011644 Q-loop/lid; other site 323850011645 ABC transporter signature motif; other site 323850011646 Walker B; other site 323850011647 D-loop; other site 323850011648 H-loop/switch region; other site 323850011649 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 323850011650 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 323850011651 GTP binding site; other site 323850011652 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional; Region: PRK14491 323850011653 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 323850011654 Walker A motif; other site 323850011655 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 323850011656 dimer interface [polypeptide binding]; other site 323850011657 putative functional site; other site 323850011658 putative MPT binding site; other site 323850011659 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 323850011660 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 323850011661 FeS/SAM binding site; other site 323850011662 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 323850011663 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 323850011664 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 323850011665 DNA binding site [nucleotide binding] 323850011666 catalytic residue [active] 323850011667 H2TH interface [polypeptide binding]; other site 323850011668 putative catalytic residues [active] 323850011669 turnover-facilitating residue; other site 323850011670 intercalation triad [nucleotide binding]; other site 323850011671 8OG recognition residue [nucleotide binding]; other site 323850011672 putative reading head residues; other site 323850011673 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 323850011674 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 323850011675 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 323850011676 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 323850011677 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 323850011678 active site 323850011679 (T/H)XGH motif; other site 323850011680 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 323850011681 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 323850011682 putative active site [active] 323850011683 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 323850011684 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 323850011685 NADP binding site [chemical binding]; other site 323850011686 homopentamer interface [polypeptide binding]; other site 323850011687 substrate binding site [chemical binding]; other site 323850011688 active site 323850011689 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323850011690 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 323850011691 active site 323850011692 nucleotide binding site [chemical binding]; other site 323850011693 HIGH motif; other site 323850011694 KMSKS motif; other site 323850011695 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 323850011696 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 323850011697 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 323850011698 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 323850011699 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 323850011700 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 323850011701 Substrate binding site; other site 323850011702 metal-binding site 323850011703 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 323850011704 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 323850011705 putative ADP-binding pocket [chemical binding]; other site 323850011706 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 323850011707 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 323850011708 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 323850011709 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 323850011710 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 323850011711 putative active site [active] 323850011712 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 323850011713 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 323850011714 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 323850011715 NAD binding site [chemical binding]; other site 323850011716 substrate binding site [chemical binding]; other site 323850011717 homodimer interface [polypeptide binding]; other site 323850011718 active site 323850011719 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 323850011720 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 323850011721 NADP binding site [chemical binding]; other site 323850011722 active site 323850011723 putative substrate binding site [chemical binding]; other site 323850011724 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 323850011725 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 323850011726 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 323850011727 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 323850011728 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 323850011729 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323850011730 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323850011731 Bacterial transcriptional repressor; Region: TetR; pfam13972 323850011732 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 323850011733 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 323850011734 substrate-cofactor binding pocket; other site 323850011735 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323850011736 catalytic residue [active] 323850011737 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 323850011738 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 323850011739 NAD(P) binding site [chemical binding]; other site 323850011740 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 323850011741 active site residue [active] 323850011742 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 323850011743 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 323850011744 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 323850011745 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 323850011746 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 323850011747 conserved cys residue [active] 323850011748 DNA polymerase I; Provisional; Region: PRK05755 323850011749 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 323850011750 active site 323850011751 metal binding site 1 [ion binding]; metal-binding site 323850011752 putative 5' ssDNA interaction site; other site 323850011753 metal binding site 3; metal-binding site 323850011754 metal binding site 2 [ion binding]; metal-binding site 323850011755 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 323850011756 putative DNA binding site [nucleotide binding]; other site 323850011757 putative metal binding site [ion binding]; other site 323850011758 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 323850011759 active site 323850011760 catalytic site [active] 323850011761 substrate binding site [chemical binding]; other site 323850011762 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 323850011763 active site 323850011764 DNA binding site [nucleotide binding] 323850011765 catalytic site [active] 323850011766 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 323850011767 G1 box; other site 323850011768 GTP/Mg2+ binding site [chemical binding]; other site 323850011769 Switch I region; other site 323850011770 G2 box; other site 323850011771 G3 box; other site 323850011772 Switch II region; other site 323850011773 G4 box; other site 323850011774 G5 box; other site 323850011775 Cytochrome c553 [Energy production and conversion]; Region: COG2863 323850011776 Cytochrome c; Region: Cytochrom_C; cl11414 323850011777 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323850011778 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 323850011779 Der GTPase activator (YihI); Region: YihI; pfam04220 323850011780 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 323850011781 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 323850011782 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 323850011783 FeS/SAM binding site; other site 323850011784 HemN C-terminal domain; Region: HemN_C; pfam06969 323850011785 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 323850011786 adenosine deaminase; Provisional; Region: PRK09358 323850011787 active site 323850011788 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 323850011789 lysophospholipase L2; Provisional; Region: PRK10749 323850011790 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 323850011791 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 323850011792 PAS fold; Region: PAS_3; pfam08447 323850011793 putative active site [active] 323850011794 heme pocket [chemical binding]; other site 323850011795 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850011796 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850011797 metal binding site [ion binding]; metal-binding site 323850011798 active site 323850011799 I-site; other site 323850011800 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 323850011801 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 323850011802 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 323850011803 trimer interface [polypeptide binding]; other site 323850011804 putative metal binding site [ion binding]; other site 323850011805 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 323850011806 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 323850011807 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 323850011808 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 323850011809 shikimate binding site; other site 323850011810 NAD(P) binding site [chemical binding]; other site 323850011811 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 323850011812 apolar tunnel; other site 323850011813 heme binding site [chemical binding]; other site 323850011814 dimerization interface [polypeptide binding]; other site 323850011815 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 323850011816 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 323850011817 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 323850011818 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 323850011819 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 323850011820 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 323850011821 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 323850011822 Protein of unknown function (DUF494); Region: DUF494; pfam04361 323850011823 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 323850011824 DNA protecting protein DprA; Region: dprA; TIGR00732 323850011825 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323850011826 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 323850011827 active site 323850011828 catalytic residues [active] 323850011829 metal binding site [ion binding]; metal-binding site 323850011830 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 323850011831 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 323850011832 putative active site [active] 323850011833 substrate binding site [chemical binding]; other site 323850011834 putative cosubstrate binding site; other site 323850011835 catalytic site [active] 323850011836 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 323850011837 substrate binding site [chemical binding]; other site 323850011838 16S rRNA methyltransferase B; Provisional; Region: PRK10901 323850011839 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 323850011840 putative RNA binding site [nucleotide binding]; other site 323850011841 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 323850011842 S-adenosylmethionine binding site [chemical binding]; other site 323850011843 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 323850011844 TrkA-N domain; Region: TrkA_N; pfam02254 323850011845 TrkA-C domain; Region: TrkA_C; pfam02080 323850011846 TrkA-N domain; Region: TrkA_N; pfam02254 323850011847 TrkA-C domain; Region: TrkA_C; pfam02080 323850011848 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 323850011849 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 323850011850 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 323850011851 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 323850011852 S-adenosylmethionine binding site [chemical binding]; other site 323850011853 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 323850011854 Chorismate lyase; Region: Chor_lyase; cl01230 323850011855 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 323850011856 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 323850011857 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 323850011858 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 323850011859 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 323850011860 alpha-glucosidase; Provisional; Region: PRK10137 323850011861 Trehalase; Region: Trehalase; cl17346 323850011862 MarC family integral membrane protein; Region: MarC; cl00919 323850011863 NRDE protein; Region: NRDE; cl01315 323850011864 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 323850011865 SnoaL-like domain; Region: SnoaL_3; pfam13474 323850011866 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 323850011867 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 323850011868 putative acyl-acceptor binding pocket; other site 323850011869 LysE type translocator; Region: LysE; cl00565 323850011870 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 323850011871 Mechanosensitive ion channel; Region: MS_channel; pfam00924 323850011872 Protein of unknown function (DUF3157); Region: DUF3157; pfam11355 323850011873 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 323850011874 CoenzymeA binding site [chemical binding]; other site 323850011875 subunit interaction site [polypeptide binding]; other site 323850011876 PHB binding site; other site 323850011877 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 323850011878 active sites [active] 323850011879 tetramer interface [polypeptide binding]; other site 323850011880 urocanate hydratase; Provisional; Region: PRK05414 323850011881 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 323850011882 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 323850011883 DNA-binding site [nucleotide binding]; DNA binding site 323850011884 UTRA domain; Region: UTRA; pfam07702 323850011885 imidazolonepropionase; Validated; Region: PRK09356 323850011886 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 323850011887 active site 323850011888 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 323850011889 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 323850011890 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 323850011891 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 323850011892 DNA binding residues [nucleotide binding] 323850011893 dimerization interface [polypeptide binding]; other site 323850011894 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850011895 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 323850011896 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 323850011897 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 323850011898 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323850011899 Sel1-like repeats; Region: SEL1; smart00671 323850011900 Sel1-like repeats; Region: SEL1; smart00671 323850011901 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 323850011902 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 323850011903 active site 323850011904 Protein of unknown function (DUF3233); Region: DUF3233; pfam11557 323850011905 Predicted acetyltransferase [General function prediction only]; Region: COG2388 323850011906 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 323850011907 active site 323850011908 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 323850011909 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 323850011910 acyl-activating enzyme (AAE) consensus motif; other site 323850011911 putative AMP binding site [chemical binding]; other site 323850011912 putative active site [active] 323850011913 putative CoA binding site [chemical binding]; other site 323850011914 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 323850011915 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 323850011916 Walker A/P-loop; other site 323850011917 ATP binding site [chemical binding]; other site 323850011918 Q-loop/lid; other site 323850011919 ABC transporter signature motif; other site 323850011920 Walker B; other site 323850011921 D-loop; other site 323850011922 H-loop/switch region; other site 323850011923 Predicted transcriptional regulators [Transcription]; Region: COG1725 323850011924 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 323850011925 DNA-binding site [nucleotide binding]; DNA binding site 323850011926 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 323850011927 TAP-like protein; Region: Abhydrolase_4; pfam08386 323850011928 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 323850011929 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323850011930 Walker A/P-loop; other site 323850011931 ATP binding site [chemical binding]; other site 323850011932 Q-loop/lid; other site 323850011933 ABC transporter signature motif; other site 323850011934 Walker B; other site 323850011935 D-loop; other site 323850011936 H-loop/switch region; other site 323850011937 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 323850011938 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 323850011939 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 323850011940 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 323850011941 conserved cys residue [active] 323850011942 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850011943 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 323850011944 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323850011945 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 323850011946 MPT binding site; other site 323850011947 trimer interface [polypeptide binding]; other site 323850011948 PAS fold; Region: PAS_4; pfam08448 323850011949 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 323850011950 putative active site [active] 323850011951 heme pocket [chemical binding]; other site 323850011952 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 323850011953 dimer interface [polypeptide binding]; other site 323850011954 phosphorylation site [posttranslational modification] 323850011955 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 323850011956 ATP binding site [chemical binding]; other site 323850011957 Mg2+ binding site [ion binding]; other site 323850011958 G-X-G motif; other site 323850011959 Response regulator receiver domain; Region: Response_reg; pfam00072 323850011960 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 323850011961 active site 323850011962 phosphorylation site [posttranslational modification] 323850011963 intermolecular recognition site; other site 323850011964 dimerization interface [polypeptide binding]; other site 323850011965 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 323850011966 putative binding surface; other site 323850011967 active site 323850011968 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 323850011969 NMT1/THI5 like; Region: NMT1; pfam09084 323850011970 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 323850011971 active site 323850011972 phosphorylation site [posttranslational modification] 323850011973 intermolecular recognition site; other site 323850011974 dimerization interface [polypeptide binding]; other site 323850011975 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323850011976 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323850011977 metal binding site [ion binding]; metal-binding site 323850011978 active site 323850011979 I-site; other site 323850011980 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 323850011981 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 323850011982 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 323850011983 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 323850011984 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 323850011985 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323850011986 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323850011987 HlyD family secretion protein; Region: HlyD_3; pfam13437 323850011988 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323850011989 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323850011990 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 323850011991 dimerization interface [polypeptide binding]; other site 323850011992 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 323850011993 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 323850011994 Domain interface; other site 323850011995 Peptide binding site; other site 323850011996 Active site tetrad [active] 323850011997 HI0933-like protein; Region: HI0933_like; pfam03486 323850011998 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 323850011999 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 323850012000 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 323850012001 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 323850012002 SecA binding site; other site 323850012003 Preprotein binding site; other site 323850012004 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 323850012005 active site residue [active] 323850012006 phosphoglyceromutase; Provisional; Region: PRK05434 323850012007 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 323850012008 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 323850012009 Peptidase family M23; Region: Peptidase_M23; pfam01551 323850012010 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 323850012011 C-terminal peptidase (prc); Region: prc; TIGR00225 323850012012 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 323850012013 protein binding site [polypeptide binding]; other site 323850012014 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 323850012015 Catalytic dyad [active] 323850012016 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 323850012017 NodB motif; other site 323850012018 putative active site [active] 323850012019 putative catalytic site [active] 323850012020 Zn binding site [ion binding]; other site 323850012021 Transcriptional regulator; Region: Rrf2; cl17282 323850012022 Predicted transcriptional regulator [Transcription]; Region: COG1959 323850012023 Flagellin N-methylase; Region: FliB; pfam03692 323850012024 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 323850012025 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 323850012026 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 323850012027 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 323850012028 substrate binding site [chemical binding]; other site 323850012029 oxyanion hole (OAH) forming residues; other site 323850012030 trimer interface [polypeptide binding]; other site 323850012031 Predicted membrane protein [Function unknown]; Region: COG3205 323850012032 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 323850012033 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 323850012034 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 323850012035 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 323850012036 metal-binding site [ion binding] 323850012037 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323850012038 Soluble P-type ATPase [General function prediction only]; Region: COG4087 323850012039 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 323850012040 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 323850012041 DNA binding residues [nucleotide binding] 323850012042 dimer interface [polypeptide binding]; other site 323850012043 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 323850012044 active site 323850012045 catalytic triad [active] 323850012046 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 323850012047 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 323850012048 Walker A motif; other site 323850012049 ATP binding site [chemical binding]; other site 323850012050 Walker B motif; other site 323850012051 arginine finger; other site 323850012052 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 323850012053 non-specific DNA binding site [nucleotide binding]; other site 323850012054 salt bridge; other site 323850012055 sequence-specific DNA binding site [nucleotide binding]; other site 323850012056 AAA domain; Region: AAA_22; pfam13401 323850012057 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 323850012058 Walker A motif; other site 323850012059 ATP binding site [chemical binding]; other site 323850012060 Walker B motif; other site 323850012061 Tn7 transposition regulator TnsC; Region: Tn7_TnsC_Int; pfam11426 323850012062 Integrase core domain; Region: rve; pfam00665 323850012063 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 323850012064 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 323850012065 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 323850012066 Transposase; Region: HTH_Tnp_1; pfam01527 323850012067 HTH-like domain; Region: HTH_21; pfam13276 323850012068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 323850012069 Integrase core domain; Region: rve; pfam00665 323850012070 Integrase core domain; Region: rve_3; pfam13683 323850012071 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 323850012072 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 323850012073 SCP-2 sterol transfer family; Region: SCP2; pfam02036 323850012074 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 323850012075 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 323850012076 Transposase domain (DUF772); Region: DUF772; pfam05598 323850012077 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 323850012078 DDE superfamily endonuclease; Region: DDE_4; cl17710 323850012079 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 323850012080 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 323850012081 glutaminase active site [active] 323850012082 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 323850012083 dimer interface [polypeptide binding]; other site 323850012084 active site 323850012085 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 323850012086 dimer interface [polypeptide binding]; other site 323850012087 active site 323850012088 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 323850012089 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 323850012090 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 323850012091 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 323850012092 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 323850012093 N-terminal plug; other site 323850012094 ligand-binding site [chemical binding]; other site 323850012095 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 323850012096 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 323850012097 Substrate binding site; other site 323850012098 Mg++ binding site; other site 323850012099 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 323850012100 active site 323850012101 substrate binding site [chemical binding]; other site 323850012102 CoA binding site [chemical binding]; other site 323850012103 DsrE/DsrF-like family; Region: DrsE; cl00672 323850012104 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 323850012105 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 323850012106 gamma subunit interface [polypeptide binding]; other site 323850012107 epsilon subunit interface [polypeptide binding]; other site 323850012108 LBP interface [polypeptide binding]; other site 323850012109 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 323850012110 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 323850012111 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 323850012112 alpha subunit interaction interface [polypeptide binding]; other site 323850012113 Walker A motif; other site 323850012114 ATP binding site [chemical binding]; other site 323850012115 Walker B motif; other site 323850012116 inhibitor binding site; inhibition site 323850012117 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 323850012118 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 323850012119 core domain interface [polypeptide binding]; other site 323850012120 delta subunit interface [polypeptide binding]; other site 323850012121 epsilon subunit interface [polypeptide binding]; other site 323850012122 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 323850012123 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 323850012124 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 323850012125 Walker A motif; other site 323850012126 ATP binding site [chemical binding]; other site 323850012127 Walker B motif; other site 323850012128 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 323850012129 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 323850012130 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 323850012131 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 323850012132 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 323850012133 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 323850012134 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 323850012135 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 323850012136 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 323850012137 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 323850012138 ParB-like nuclease domain; Region: ParBc; pfam02195 323850012139 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 323850012140 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 323850012141 P-loop; other site 323850012142 Magnesium ion binding site [ion binding]; other site 323850012143 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 323850012144 Magnesium ion binding site [ion binding]; other site 323850012145 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 323850012146 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 323850012147 S-adenosylmethionine binding site [chemical binding]; other site 323850012148 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 323850012149 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 323850012150 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 323850012151 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 323850012152 FMN-binding protein MioC; Provisional; Region: PRK09004 323850012153 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 323850012154 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 323850012155 S-adenosylmethionine binding site [chemical binding]; other site 323850012156 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 323850012157 active site 323850012158 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 323850012159 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 323850012160 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 323850012161 multiple promoter invertase; Provisional; Region: mpi; PRK13413 323850012162 catalytic residues [active] 323850012163 catalytic nucleophile [active] 323850012164 Presynaptic Site I dimer interface [polypeptide binding]; other site 323850012165 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 323850012166 Synaptic Flat tetramer interface [polypeptide binding]; other site 323850012167 Synaptic Site I dimer interface [polypeptide binding]; other site 323850012168 DNA binding site [nucleotide binding] 323850012169 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 323850012170 DNA-binding interface [nucleotide binding]; DNA binding site 323850012171 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 323850012172 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 323850012173 Walker A motif; other site 323850012174 ATP binding site [chemical binding]; other site 323850012175 Walker B motif; other site 323850012176 arginine finger; other site 323850012177 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 323850012178 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 323850012179 active site 323850012180 catalytic triad [active] 323850012181 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 323850012182 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 323850012183 trmE is a tRNA modification GTPase; Region: trmE; cd04164 323850012184 G1 box; other site 323850012185 GTP/Mg2+ binding site [chemical binding]; other site 323850012186 Switch I region; other site 323850012187 G2 box; other site 323850012188 Switch II region; other site 323850012189 G3 box; other site 323850012190 G4 box; other site 323850012191 G5 box; other site 323850012192 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 323850012193 membrane protein insertase; Provisional; Region: PRK01318 323850012194 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 323850012195 Haemolytic domain; Region: Haemolytic; pfam01809 323850012196 ribonuclease P; Reviewed; Region: rnpA; PRK01732 323850012197 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399