-- dump date 20111121_015624 -- class Genbank::misc_feature -- table misc_feature_note -- id note 388396000001 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 388396000002 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 388396000003 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 388396000004 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 388396000005 G1 box; other site 388396000006 GTP/Mg2+ binding site [chemical binding]; other site 388396000007 Switch I region; other site 388396000008 G2 box; other site 388396000009 Switch II region; other site 388396000010 G3 box; other site 388396000011 G4 box; other site 388396000012 G5 box; other site 388396000013 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 388396000014 membrane protein insertase; Provisional; Region: PRK01318 388396000015 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 388396000016 Ribonuclease P; Region: Ribonuclease_P; cl00457 388396000017 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 388396000018 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 388396000019 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 388396000020 Walker A/P-loop; other site 388396000021 ATP binding site [chemical binding]; other site 388396000022 Q-loop/lid; other site 388396000023 ABC transporter signature motif; other site 388396000024 Walker B; other site 388396000025 D-loop; other site 388396000026 H-loop/switch region; other site 388396000027 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396000028 dimer interface [polypeptide binding]; other site 388396000029 conserved gate region; other site 388396000030 putative PBP binding loops; other site 388396000031 ABC-ATPase subunit interface; other site 388396000032 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...; Region: PBPb; cd00134 388396000033 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 388396000034 substrate binding pocket [chemical binding]; other site 388396000035 membrane-bound complex binding site; other site 388396000036 hinge residues; other site 388396000037 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 388396000038 hypothetical protein; Validated; Region: PRK06672 388396000039 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...; Region: AAA; cd00009 388396000040 Walker A motif; other site 388396000041 ATP binding site [chemical binding]; other site 388396000042 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396000043 Walker B motif; other site 388396000044 arginine finger; other site 388396000045 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 388396000046 DnaA box-binding interface [nucleotide binding]; other site 388396000047 DNA polymerase III subunit beta; Validated; Region: PRK05643 388396000048 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...; Region: beta_clamp; cd00140 388396000049 putative DNA binding surface [nucleotide binding]; other site 388396000050 dimer interface [polypeptide binding]; other site 388396000051 beta-clamp/clamp loader binding surface; other site 388396000052 beta-clamp/translesion DNA polymerase binding surface; other site 388396000053 recombination protein F; Reviewed; Region: recF; PRK00064 388396000054 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396000055 Walker A/P-loop; other site 388396000056 ATP binding site [chemical binding]; other site 388396000057 Q-loop/lid; other site 388396000058 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396000059 ABC transporter signature motif; other site 388396000060 Walker B; other site 388396000061 D-loop; other site 388396000062 H-loop/switch region; other site 388396000063 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 388396000064 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 388396000065 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 388396000066 anchoring element; other site 388396000067 dimer interface [polypeptide binding]; other site 388396000068 ATP binding site [chemical binding]; other site 388396000069 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 388396000070 active site 388396000071 putative metal-binding site [ion binding]; other site 388396000072 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 388396000073 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 388396000074 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...; Region: ACD_IbpA-B_like; cd06470 388396000075 putative dimer interface [polypeptide binding]; other site 388396000076 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 388396000077 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 388396000078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396000079 homodimer interface [polypeptide binding]; other site 388396000080 catalytic residue [active] 388396000081 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 388396000082 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 388396000083 dimer interface [polypeptide binding]; other site 388396000084 motif 1; other site 388396000085 active site 388396000086 motif 2; other site 388396000087 motif 3; other site 388396000088 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 388396000089 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 388396000090 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 388396000091 alpha-amylase; Reviewed; Region: malS; PRK09505 388396000092 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 388396000093 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 388396000094 CPxP motif; other site 388396000095 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396000096 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396000097 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 388396000098 substrate binding pocket [chemical binding]; other site 388396000099 dimerization interface [polypeptide binding]; other site 388396000100 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 388396000101 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 388396000102 NADP binding site [chemical binding]; other site 388396000103 dimer interface [polypeptide binding]; other site 388396000104 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 388396000105 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 388396000106 dimer interface [polypeptide binding]; other site 388396000107 active site 388396000108 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 388396000109 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 388396000110 substrate binding site [chemical binding]; other site 388396000111 oxyanion hole (OAH) forming residues; other site 388396000112 trimer interface [polypeptide binding]; other site 388396000113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396000114 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 388396000115 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 388396000116 hypothetical protein; Provisional; Region: PRK11568 388396000117 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 388396000118 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 388396000119 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 388396000120 Cation transport protein; Region: TrkH; cl10514 388396000121 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 388396000122 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 388396000123 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 388396000124 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 388396000125 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 388396000126 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 388396000127 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 388396000128 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 388396000129 putative Cl- selectivity filter; other site 388396000130 putative pore gating glutamate residue; other site 388396000131 ThiC family; Region: ThiC; cl08031 388396000132 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- (beta-...; Region: TMP_TenI; cd00564 388396000133 thiamine phosphate binding site [chemical binding]; other site 388396000134 active site 388396000135 pyrophosphate binding site [ion binding]; other site 388396000136 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 388396000137 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...; Region: ThiF_MoeB_HesA_family; cd00757 388396000138 ATP binding site [chemical binding]; other site 388396000139 substrate interface [chemical binding]; other site 388396000140 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 388396000141 thiS-thiF/thiG interaction site; other site 388396000142 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 388396000143 ThiS interaction site; other site 388396000144 putative active site [active] 388396000145 tetramer interface [polypeptide binding]; other site 388396000146 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 388396000147 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 388396000148 FeS/SAM binding site; other site 388396000149 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 388396000150 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 388396000151 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 388396000152 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 388396000153 active site 388396000154 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 388396000155 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396000156 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 388396000157 substrate binding pocket [chemical binding]; other site 388396000158 dimerization interface [polypeptide binding]; other site 388396000159 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 388396000160 Major Facilitator Superfamily; Region: MFS_1; pfam07690 388396000161 putative substrate translocation pore; other site 388396000162 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 388396000163 EamA-like transporter family; Region: EamA; cl01037 388396000164 EamA-like transporter family; Region: EamA; cl01037 388396000165 RmuC family; Region: RmuC; pfam02646 388396000166 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 388396000167 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 388396000168 S-adenosylmethionine binding site [chemical binding]; other site 388396000169 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; cl12011 388396000170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 388396000171 SCP-2 sterol transfer family; Region: SCP2; cl01225 388396000172 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 388396000173 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 388396000174 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 388396000175 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 388396000176 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 388396000177 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 388396000178 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 388396000179 active site 388396000180 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 388396000181 dimer interface [polypeptide binding]; other site 388396000182 allosteric magnesium binding site [ion binding]; other site 388396000183 active site 388396000184 aspartate-rich active site metal binding site; other site 388396000185 Schiff base residues; other site 388396000186 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 388396000187 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 388396000188 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 388396000189 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 388396000190 ATP binding site [chemical binding]; other site 388396000191 Mg++ binding site [ion binding]; other site 388396000192 motif III; other site 388396000193 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 388396000194 nucleotide binding region [chemical binding]; other site 388396000195 ATP-binding site [chemical binding]; other site 388396000196 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 388396000197 catalytic residues [active] 388396000198 transcription termination factor Rho; Provisional; Region: rho; PRK09376 388396000199 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 388396000200 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...; Region: Rho_CSD; cd04459 388396000201 RNA binding site [nucleotide binding]; other site 388396000202 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...; Region: rho_factor; cd01128 388396000203 multimer interface [polypeptide binding]; other site 388396000204 Walker A motif; other site 388396000205 ATP binding site [chemical binding]; other site 388396000206 Walker B motif; other site 388396000207 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 388396000208 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 388396000209 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 388396000210 catalytic loop [active] 388396000211 iron binding site [ion binding]; other site 388396000212 FMN reductase; Validated; Region: fre; PRK08051 388396000213 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...; Region: flavin_oxioreductase; cd06189 388396000214 FAD binding pocket [chemical binding]; other site 388396000215 FAD binding motif [chemical binding]; other site 388396000216 phosphate binding motif [ion binding]; other site 388396000217 beta-alpha-beta structure motif; other site 388396000218 NAD binding pocket [chemical binding]; other site 388396000219 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 388396000220 HemY protein N-terminus; Region: HemY_N; pfam07219 388396000221 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 388396000222 HemX; Region: HemX; cl14667 388396000223 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 388396000224 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...; Region: HemD; cd06578 388396000225 active site 388396000226 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 388396000227 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 388396000228 domain interfaces; other site 388396000229 active site 388396000230 adenylate cyclase; Provisional; Region: cyaA; PRK09450 388396000231 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 388396000232 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 388396000233 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 388396000234 UvrD/REP helicase; Region: UvrD-helicase; cl14126 388396000235 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 388396000236 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 388396000237 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 388396000238 ATP binding site [chemical binding]; other site 388396000239 putative Mg++ binding site [ion binding]; other site 388396000240 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 388396000241 nucleotide binding region [chemical binding]; other site 388396000242 ATP-binding site [chemical binding]; other site 388396000243 RQC domain; Region: RQC; pfam09382 388396000244 HRDC domain; Region: HRDC; cl02578 388396000245 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 388396000246 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 388396000247 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 388396000248 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 388396000249 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 388396000250 DNA polymerase I; Provisional; Region: PRK05755 388396000251 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 388396000252 active site 388396000253 metal binding site 1 [ion binding]; metal-binding site 388396000254 putative 5' ssDNA interaction site; other site 388396000255 metal binding site 3; metal-binding site 388396000256 metal binding site 2 [ion binding]; metal-binding site 388396000257 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 388396000258 putative DNA binding site [nucleotide binding]; other site 388396000259 putative metal binding site [ion binding]; other site 388396000260 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 388396000261 active site 388396000262 catalytic site [active] 388396000263 substrate binding site [chemical binding]; other site 388396000264 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 388396000265 active site 388396000266 DNA binding site [nucleotide binding] 388396000267 catalytic site [active] 388396000268 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 388396000269 G1 box; other site 388396000270 GTP/Mg2+ binding site [chemical binding]; other site 388396000271 Switch I region; other site 388396000272 G2 box; other site 388396000273 G3 box; other site 388396000274 Switch II region; other site 388396000275 G4 box; other site 388396000276 G5 box; other site 388396000277 Cytochrome c; Region: Cytochrom_C; cl11414 388396000278 Cytochrome c; Region: Cytochrom_C; cl11414 388396000279 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; cl12011 388396000280 Protein of unknown function, DUF414; Region: DUF414; cl01172 388396000281 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 388396000282 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 388396000283 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 388396000284 FeS/SAM binding site; other site 388396000285 HemN C-terminal region; Region: HemN_C; pfam06969 388396000286 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 388396000287 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396000288 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; cl12011 388396000289 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 388396000290 Ligand Binding Site [chemical binding]; other site 388396000291 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 388396000292 Ferritin-like domain; Region: Ferritin; pfam00210 388396000293 ferroxidase diiron center [ion binding]; other site 388396000294 Universal stress protein B (UspB); Region: UspB; cl11669 388396000295 Predicted flavoproteins [General function prediction only]; Region: COG2081 388396000296 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396000297 Uncharacterized conserved protein [Function unknown]; Region: COG3287 388396000298 FIST N domain; Region: FIST; pfam08495 388396000299 FIST C domain; Region: FIST_C; pfam10442 388396000300 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396000301 metal binding site [ion binding]; metal-binding site 388396000302 active site 388396000303 I-site; other site 388396000304 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 388396000305 DTW domain; Region: DTW; cl01221 388396000306 Predicted membrane protein [Function unknown]; Region: COG3650 388396000307 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 388396000308 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 388396000309 active site 388396000310 intersubunit interface [polypeptide binding]; other site 388396000311 catalytic residue [active] 388396000312 Cache domain; Region: Cache_1; pfam02743 388396000313 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396000314 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396000315 metal binding site [ion binding]; metal-binding site 388396000316 active site 388396000317 I-site; other site 388396000318 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 388396000319 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...; Region: metallo-dependent_hydrolases; cl00281 388396000320 active site 388396000321 Cache domain; Region: Cache_1; pfam02743 388396000322 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396000323 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396000324 metal binding site [ion binding]; metal-binding site 388396000325 active site 388396000326 I-site; other site 388396000327 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 388396000328 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 388396000329 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 388396000330 active site 388396000331 phosphorylation site [posttranslational modification] 388396000332 intermolecular recognition site; other site 388396000333 dimerization interface [polypeptide binding]; other site 388396000334 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...; Region: AAA; cd00009 388396000335 Walker A motif; other site 388396000336 ATP binding site [chemical binding]; other site 388396000337 Walker B motif; other site 388396000338 arginine finger; other site 388396000339 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 388396000340 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 388396000341 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 388396000342 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 trans-...; Region: HisKA; cd00082 388396000343 dimer interface [polypeptide binding]; other site 388396000344 phosphorylation site [posttranslational modification] 388396000345 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 388396000346 ATP binding site [chemical binding]; other site 388396000347 Mg2+ binding site [ion binding]; other site 388396000348 G-X-G motif; other site 388396000349 glutamine synthetase; Provisional; Region: glnA; PRK09469 388396000350 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 388396000351 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 388396000352 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 388396000353 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 388396000354 G1 box; other site 388396000355 putative GEF interaction site [polypeptide binding]; other site 388396000356 GTP/Mg2+ binding site [chemical binding]; other site 388396000357 Switch I region; other site 388396000358 G2 box; other site 388396000359 G3 box; other site 388396000360 Switch II region; other site 388396000361 G4 box; other site 388396000362 G5 box; other site 388396000363 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 388396000364 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...; Region: BipA_TypA_C; cd03710 388396000365 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 388396000366 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...; Region: Dtyr_deacylase; cd00563 388396000367 putative active site [active] 388396000368 dimerization interface [polypeptide binding]; other site 388396000369 putative tRNAtyr binding site [nucleotide binding]; other site 388396000370 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 388396000371 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 388396000372 Coenzyme A binding pocket [chemical binding]; other site 388396000373 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 388396000374 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 388396000375 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 388396000376 C-terminal; Region: SpoU_methylas_C; pfam12105 388396000377 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 388396000378 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 388396000379 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 388396000380 synthetase active site [active] 388396000381 NTP binding site [chemical binding]; other site 388396000382 metal binding site [ion binding]; metal-binding site 388396000383 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...; Region: TGS_RelA_SpoT; cd01668 388396000384 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 388396000385 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 388396000386 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...; Region: GMPK; cd00071 388396000387 catalytic site [active] 388396000388 G-X2-G-X-G-K; other site 388396000389 Phosphate-starvation-inducible E; Region: PsiE; cl01264 388396000390 EamA-like transporter family; Region: EamA; cl01037 388396000391 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 388396000392 EamA-like transporter family; Region: EamA; cl01037 388396000393 hypothetical protein; Provisional; Region: PRK11820 388396000394 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 388396000395 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 388396000396 ribonuclease PH; Reviewed; Region: rph; PRK00173 388396000397 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 388396000398 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 388396000399 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 388396000400 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...; Region: ParA; cd02042 388396000401 P-loop; other site 388396000402 Magnesium ion binding site [ion binding]; other site 388396000403 osmolarity response regulator; Provisional; Region: ompR; PRK09468 388396000404 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 388396000405 active site 388396000406 phosphorylation site [posttranslational modification] 388396000407 intermolecular recognition site; other site 388396000408 dimerization interface [polypeptide binding]; other site 388396000409 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...; Region: trans_reg_C; cd00383 388396000410 DNA binding site [nucleotide binding] 388396000411 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 388396000412 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396000413 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 trans-...; Region: HisKA; cd00082 388396000414 dimer interface [polypeptide binding]; other site 388396000415 phosphorylation site [posttranslational modification] 388396000416 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 388396000417 ATP binding site [chemical binding]; other site 388396000418 Mg2+ binding site [ion binding]; other site 388396000419 G-X-G motif; other site 388396000420 Permease family; Region: Xan_ur_permease; pfam00860 388396000421 Sulfate transporter family; Region: Sulfate_transp; cl00967 388396000422 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 388396000423 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 388396000424 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 388396000425 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 388396000426 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 388396000427 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 388396000428 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 388396000429 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...; Region: S1_Tex; cd05685 388396000430 RNA binding site [nucleotide binding]; other site 388396000431 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 388396000432 domain; Region: GreA_GreB_N; pfam03449 388396000433 C-term; Region: GreA_GreB; pfam01272 388396000434 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 388396000435 putative acyl-acceptor binding pocket; other site 388396000436 division inhibitor protein; Provisional; Region: slmA; PRK09480 388396000437 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 388396000438 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 388396000439 Flavoprotein; Region: Flavoprotein; cl08021 388396000440 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 388396000441 hypothetical protein; Reviewed; Region: PRK00024 388396000442 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 388396000443 MPN+ (JAMM) motif; other site 388396000444 Zinc-binding site [ion binding]; other site 388396000445 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 388396000446 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 388396000447 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 388396000448 Sulfatase; Region: Sulfatase; cl10460 388396000449 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 388396000450 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 388396000451 DNA binding site [nucleotide binding] 388396000452 catalytic residue [active] 388396000453 H2TH interface [polypeptide binding]; other site 388396000454 putative catalytic residues [active] 388396000455 turnover-facilitating residue; other site 388396000456 intercalation triad [nucleotide binding]; other site 388396000457 8OG recognition residue [nucleotide binding]; other site 388396000458 putative reading head residues; other site 388396000459 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 388396000460 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 388396000461 Putative lipopolysaccharide-modifying enzyme; Region: CAP10; smart00672 388396000462 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 388396000463 active site 388396000464 (T/H)XGH motif; other site 388396000465 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 388396000466 Substrate binding site [chemical binding]; other site 388396000467 metal binding site [ion binding]; metal-binding site 388396000468 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 388396000469 putative metal binding site [ion binding]; other site 388396000470 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 388396000471 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 388396000472 putative active site [active] 388396000473 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 388396000474 ATP binding site [chemical binding]; other site 388396000475 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 388396000476 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 388396000477 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 388396000478 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 388396000479 O-Antigen ligase; Region: Wzy_C; cl04850 388396000480 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; cl11391 388396000481 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 388396000482 Ligand binding site [chemical binding]; other site 388396000483 WavE lipopolysaccharide synthesis; Region: WavE; pfam07507 388396000484 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 388396000485 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 388396000486 putative active site [active] 388396000487 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 388396000488 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 388396000489 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 388396000490 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 388396000491 NADP binding site [chemical binding]; other site 388396000492 homopentamer interface [polypeptide binding]; other site 388396000493 substrate binding site [chemical binding]; other site 388396000494 active site 388396000495 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 388396000496 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 388396000497 Beta-Casp domain; Region: Beta-Casp; pfam10996 388396000498 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 388396000499 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 388396000500 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 388396000501 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 388396000502 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 388396000503 SLBB-domain like (DUF1017); Region: DUF1017; pfam06251 388396000504 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 388396000505 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 388396000506 polysaccharide export protein Wza; Provisional; Region: PRK15078 388396000507 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 388396000508 SLBB domain; Region: SLBB; pfam10531 388396000509 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 388396000510 Low molecular weight phosphatase family; Region: LMWPc; cd00115 388396000511 Active site [active] 388396000512 tyrosine kinase; Provisional; Region: PRK11519 388396000513 Chain length determinant protein; Region: Wzz; cl01623 388396000514 Chain length determinant protein; Region: Wzz; cl01623 388396000515 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 388396000516 P loop; other site 388396000517 Nucleotide binding site [chemical binding]; other site 388396000518 DTAP/Switch II; other site 388396000519 Switch I; other site 388396000520 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 388396000521 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 388396000522 NAD binding site [chemical binding]; other site 388396000523 substrate binding site [chemical binding]; other site 388396000524 homodimer interface [polypeptide binding]; other site 388396000525 active site 388396000526 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 388396000527 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 388396000528 substrate binding site [chemical binding]; other site 388396000529 tetramer interface [polypeptide binding]; other site 388396000530 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 388396000531 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 388396000532 NADP binding site [chemical binding]; other site 388396000533 active site 388396000534 putative substrate binding site [chemical binding]; other site 388396000535 Cupin domain; Region: Cupin_2; cl09118 388396000536 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 388396000537 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 388396000538 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 388396000539 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 6-...; Region: LbH_MAT_like; cd04647 388396000540 trimer interface [polypeptide binding]; other site 388396000541 CoA binding site [chemical binding]; other site 388396000542 active site 388396000543 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 388396000544 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 388396000545 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 388396000546 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 388396000547 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 388396000548 active site 388396000549 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 388396000550 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 388396000551 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 388396000552 Mg++ binding site [ion binding]; other site 388396000553 putative catalytic motif [active] 388396000554 substrate binding site [chemical binding]; other site 388396000555 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 388396000556 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 388396000557 NAD(P) binding site [chemical binding]; other site 388396000558 homodimer interface [polypeptide binding]; other site 388396000559 substrate binding site [chemical binding]; other site 388396000560 active site 388396000561 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 388396000562 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 388396000563 inhibitor-cofactor binding pocket; inhibition site 388396000564 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396000565 catalytic residue [active] 388396000566 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 388396000567 ligand binding site [chemical binding]; other site 388396000568 tetramer interface [polypeptide binding]; other site 388396000569 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 388396000570 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 388396000571 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396000572 pseudaminic acid synthase; Region: PseI; TIGR03586 388396000573 NeuB family; Region: NeuB; cl00496 388396000574 SAF domain; Region: SAF; cl00555 388396000575 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 388396000576 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 388396000577 Ligand Binding Site [chemical binding]; other site 388396000578 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 388396000579 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 388396000580 conserved cys residue [active] 388396000581 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; cl09108 388396000582 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 388396000583 Ligand Binding Site [chemical binding]; other site 388396000584 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 388396000585 putative acyl transferase; Provisional; Region: PRK10191 388396000586 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 L-...; Region: LbH_SAT; cd03354 388396000587 trimer interface [polypeptide binding]; other site 388396000588 active site 388396000589 substrate binding site [chemical binding]; other site 388396000590 CoA binding site [chemical binding]; other site 388396000591 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 388396000592 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 388396000593 putative ADP-binding pocket [chemical binding]; other site 388396000594 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 388396000595 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 388396000596 putative NAD(P) binding site [chemical binding]; other site 388396000597 active site 388396000598 putative substrate binding site [chemical binding]; other site 388396000599 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 388396000600 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 388396000601 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 388396000602 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 388396000603 putative ADP-binding pocket [chemical binding]; other site 388396000604 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 388396000605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396000606 NAD(P) binding site [chemical binding]; other site 388396000607 active site 388396000608 Bacterial sugar transferase; Region: Bac_transf; cl00939 388396000609 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 388396000610 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396000611 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 388396000612 NAD(P) binding site [chemical binding]; other site 388396000613 homodimer interface [polypeptide binding]; other site 388396000614 substrate binding site [chemical binding]; other site 388396000615 active site 388396000616 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 388396000617 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396000618 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 388396000619 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 388396000620 UDP-glucose 4-epimerase; Region: PLN02240 388396000621 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 388396000622 NAD binding site [chemical binding]; other site 388396000623 homodimer interface [polypeptide binding]; other site 388396000624 active site 388396000625 substrate binding site [chemical binding]; other site 388396000626 Sulfatase; Region: Sulfatase; cl10460 388396000627 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 388396000628 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 388396000629 MatE; Region: MatE; pfam01554 388396000630 MatE; Region: MatE; pfam01554 388396000631 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...; Region: cpn10; cd00320 388396000632 oligomerisation interface [polypeptide binding]; other site 388396000633 mobile loop; other site 388396000634 roof hairpin; other site 388396000635 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 388396000636 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 388396000637 ring oligomerisation interface [polypeptide binding]; other site 388396000638 ATP/Mg binding site [chemical binding]; other site 388396000639 stacking interactions; other site 388396000640 hinge regions; other site 388396000641 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 388396000642 substrate binding site [chemical binding]; other site 388396000643 dimer interface [polypeptide binding]; other site 388396000644 catalytic triad [active] 388396000645 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 388396000646 putative substrate binding pocket [chemical binding]; other site 388396000647 trimer interface [polypeptide binding]; other site 388396000648 Protein of unknown function (DUF3135); Region: DUF3135; pfam11333 388396000649 Fructose-1,6-bisphosphatase/sedoheptulose 1,7-bisphosphatase and related proteins [Carbohydrate transport and metabolism]; Region: GlpX; COG1494 388396000650 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 388396000651 putative active site [active] 388396000652 Protein of unknown function (DUF904); Region: DUF904; cl11531 388396000653 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 388396000654 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; COG1575 388396000655 UbiA prenyltransferase family; Region: UbiA; cl00337 388396000656 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396000657 Active site [active] 388396000658 Uncharacterised protein family (UPF0270); Region: UPF0270; cl01180 388396000659 putative hydrolase; Provisional; Region: PRK10985 388396000660 Protein of unknown function (DUF2390); Region: DUF2390; cl02376 388396000661 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 388396000662 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 388396000663 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396000664 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 388396000665 ABC transporter; Region: ABC_tran_2; pfam12848 388396000666 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 388396000667 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 388396000668 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 388396000669 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 388396000670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396000671 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 388396000672 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 388396000673 SlyX; Region: SlyX; cl01090 388396000674 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...; Region: WD40; cl02567 388396000675 structural tetrad; other site 388396000676 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 388396000677 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 388396000678 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 388396000679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 388396000680 YheO-like PAS domain; Region: PAS_6; pfam08348 388396000681 DsrE/DsrF-like family; Region: DrsE; cl00672 388396000682 DsrE/DsrF-like family; Region: DrsE; cl00672 388396000683 DsrH like protein; Region: DsrH; cl00953 388396000684 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 388396000685 S17 interaction site [polypeptide binding]; other site 388396000686 S8 interaction site; other site 388396000687 16S rRNA interaction site [nucleotide binding]; other site 388396000688 streptomycin interaction site [chemical binding]; other site 388396000689 23S rRNA interaction site [nucleotide binding]; other site 388396000690 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 388396000691 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 388396000692 elongation factor G; Reviewed; Region: PRK00007 388396000693 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 388396000694 G1 box; other site 388396000695 putative GEF interaction site [polypeptide binding]; other site 388396000696 GTP/Mg2+ binding site [chemical binding]; other site 388396000697 Switch I region; other site 388396000698 G2 box; other site 388396000699 G3 box; other site 388396000700 Switch II region; other site 388396000701 G4 box; other site 388396000702 G5 box; other site 388396000703 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...; Region: EFG_mtEFG_II; cd04088 388396000704 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...; Region: EFG_mtEFG1_IV; cd01434 388396000705 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...; Region: EFG_mtEFG_C; cd03713 388396000706 elongation factor Tu; Reviewed; Region: PRK00049 388396000707 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 388396000708 G1 box; other site 388396000709 GEF interaction site [polypeptide binding]; other site 388396000710 GTP/Mg2+ binding site [chemical binding]; other site 388396000711 Switch I region; other site 388396000712 G2 box; other site 388396000713 G3 box; other site 388396000714 Switch II region; other site 388396000715 G4 box; other site 388396000716 G5 box; other site 388396000717 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 388396000718 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 388396000719 Antibiotic Binding Site [chemical binding]; other site 388396000720 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 388396000721 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 388396000722 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 388396000723 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 388396000724 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 388396000725 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 388396000726 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 388396000727 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 388396000728 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 388396000729 putative translocon binding site; other site 388396000730 protein-rRNA interface [nucleotide binding]; other site 388396000731 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 388396000732 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...; Region: 30S_S3_KH; cd02412 388396000733 G-X-X-G motif; other site 388396000734 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 388396000735 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 388396000736 23S rRNA interface [nucleotide binding]; other site 388396000737 5S rRNA interface [nucleotide binding]; other site 388396000738 putative antibiotic binding site [chemical binding]; other site 388396000739 L25 interface [polypeptide binding]; other site 388396000740 L27 interface [polypeptide binding]; other site 388396000741 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...; Region: Ribosomal_L29_HIP; cl09943 388396000742 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 388396000743 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 388396000744 KOW motif; Region: KOW; cl00354 388396000745 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 388396000746 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 388396000747 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 388396000748 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 388396000749 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 388396000750 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 388396000751 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 388396000752 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 388396000753 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 388396000754 5S rRNA interface [nucleotide binding]; other site 388396000755 23S rRNA interface [nucleotide binding]; other site 388396000756 L5 interface [polypeptide binding]; other site 388396000757 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 388396000758 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 388396000759 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 388396000760 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...; Region: Ribosomal_L30; cd01658 388396000761 23S rRNA binding site [nucleotide binding]; other site 388396000762 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 388396000763 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 388396000764 SecY translocase; Region: SecY; pfam00344 388396000765 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 388396000766 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 388396000767 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 388396000768 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 388396000769 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 388396000770 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 388396000771 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 388396000772 RNA binding surface [nucleotide binding]; other site 388396000773 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 388396000774 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 388396000775 alphaNTD homodimer interface [polypeptide binding]; other site 388396000776 alphaNTD - beta interaction site [polypeptide binding]; other site 388396000777 alphaNTD - beta' interaction site [polypeptide binding]; other site 388396000778 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 388396000779 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 388396000780 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-1,7-...; Region: FBPase; cd00354 388396000781 AMP binding site [chemical binding]; other site 388396000782 metal binding site [ion binding]; metal-binding site 388396000783 active site 388396000784 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 388396000785 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 388396000786 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 388396000787 aromatic acid decarboxylase; Validated; Region: PRK05920 388396000788 Flavoprotein; Region: Flavoprotein; cl08021 388396000789 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 388396000790 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 388396000791 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 388396000792 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 388396000793 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396000794 dimer interface [polypeptide binding]; other site 388396000795 conserved gate region; other site 388396000796 putative PBP binding loops; other site 388396000797 ABC-ATPase subunit interface; other site 388396000798 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 388396000799 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396000800 Walker A/P-loop; other site 388396000801 ATP binding site [chemical binding]; other site 388396000802 Q-loop/lid; other site 388396000803 ABC transporter signature motif; other site 388396000804 Walker B; other site 388396000805 D-loop; other site 388396000806 H-loop/switch region; other site 388396000807 ATP-dependent helicase HepA; Validated; Region: PRK04914 388396000808 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 388396000809 ATP binding site [chemical binding]; other site 388396000810 putative Mg++ binding site [ion binding]; other site 388396000811 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 388396000812 nucleotide binding region [chemical binding]; other site 388396000813 ATP-binding site [chemical binding]; other site 388396000814 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 388396000815 active site 388396000816 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 388396000817 Ligand Binding Site [chemical binding]; other site 388396000818 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; cl09110 388396000819 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 388396000820 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 388396000821 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 388396000822 arginine repressor; Provisional; Region: PRK05066 388396000823 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 388396000824 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 388396000825 malate dehydrogenase; Provisional; Region: PRK05086 388396000826 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 388396000827 NAD binding site [chemical binding]; other site 388396000828 dimerization interface [polypeptide binding]; other site 388396000829 Substrate binding site [chemical binding]; other site 388396000830 octaprenyl diphosphate synthase; Provisional; Region: PRK10888 388396000831 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 388396000832 substrate binding pocket [chemical binding]; other site 388396000833 chain length determination region; other site 388396000834 substrate-Mg2+ binding site; other site 388396000835 catalytic residues [active] 388396000836 aspartate-rich region 1; other site 388396000837 active site lid residues [active] 388396000838 aspartate-rich region 2; other site 388396000839 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 388396000840 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 388396000841 GTPase CgtA; Reviewed; Region: obgE; PRK12298 388396000842 GTP1/OBG; Region: GTP1_OBG; pfam01018 388396000843 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 388396000844 G1 box; other site 388396000845 GTP/Mg2+ binding site [chemical binding]; other site 388396000846 Switch I region; other site 388396000847 G2 box; other site 388396000848 G3 box; other site 388396000849 Switch II region; other site 388396000850 G4 box; other site 388396000851 G5 box; other site 388396000852 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 388396000853 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 388396000854 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 5,10-...; Region: DHFR; cd00209 388396000855 folate binding site [chemical binding]; other site 388396000856 NADP+ binding site [chemical binding]; other site 388396000857 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 388396000858 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 388396000859 active site 388396000860 metal binding site [ion binding]; metal-binding site 388396000861 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; cl12011 388396000862 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 388396000863 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 388396000864 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 388396000865 SurA N-terminal domain; Region: SurA_N; pfam09312 388396000866 PPIC-type PPIASE domain; Region: Rotamase; cl08278 388396000867 PPIC-type PPIASE domain; Region: Rotamase; cl08278 388396000868 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 388396000869 OstA-like protein; Region: OstA; cl00844 388396000870 Organic solvent tolerance protein; Region: OstA_C; pfam04453 388396000871 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 388396000872 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 388396000873 putative metal binding site [ion binding]; other site 388396000874 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...; Region: DnaJ; cd06257 388396000875 HSP70 interaction site [polypeptide binding]; other site 388396000876 Protein of unknown function, DUF547; Region: DUF547; pfam04784 388396000877 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 3-...; Region: IPMI_Swivel; cd01577 388396000878 substrate binding site [chemical binding]; other site 388396000879 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 388396000880 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 388396000881 substrate binding site [chemical binding]; other site 388396000882 ligand binding site [chemical binding]; other site 388396000883 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 388396000884 isocitrate dehydrogenase; Validated; Region: PRK06451 388396000885 2-isopropylmalate synthase; Validated; Region: PRK00915 388396000886 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 388396000887 active site 388396000888 catalytic residues [active] 388396000889 metal binding site [ion binding]; metal-binding site 388396000890 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 388396000891 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 388396000892 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 388396000893 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 388396000894 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 388396000895 Protein export membrane protein; Region: SecD_SecF; cl14618 388396000896 Protein export membrane protein; Region: SecD_SecF; cl14618 388396000897 Protein of unknown function, DUF481; Region: DUF481; cl01213 388396000898 replicative DNA helicase; Provisional; Region: PRK08840 388396000899 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 388396000900 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 388396000901 Walker A motif; other site 388396000902 ATP binding site [chemical binding]; other site 388396000903 Walker B motif; other site 388396000904 DNA binding loops [nucleotide binding] 388396000905 alanine racemase; Reviewed; Region: alr; PRK00053 388396000906 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 388396000907 active site 388396000908 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 388396000909 substrate binding site [chemical binding]; other site 388396000910 catalytic residues [active] 388396000911 dimer interface [polypeptide binding]; other site 388396000912 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 388396000913 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 388396000914 active site 388396000915 dimer interface [polypeptide binding]; other site 388396000916 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 388396000917 dimer interface [polypeptide binding]; other site 388396000918 active site 388396000919 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 388396000920 CheC-like family; Region: CheC; pfam04509 388396000921 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 388396000922 metal binding site 2 [ion binding]; metal-binding site 388396000923 putative DNA binding helix; other site 388396000924 metal binding site 1 [ion binding]; metal-binding site 388396000925 dimer interface [polypeptide binding]; other site 388396000926 structural Zn2+ binding site [ion binding]; other site 388396000927 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 388396000928 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...; Region: DUS_like_FMN; cd02801 388396000929 FMN binding site [chemical binding]; other site 388396000930 active site 388396000931 catalytic residues [active] 388396000932 substrate binding site [chemical binding]; other site 388396000933 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 388396000934 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 388396000935 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 388396000936 FAD binding pocket [chemical binding]; other site 388396000937 FAD binding motif [chemical binding]; other site 388396000938 catalytic residues [active] 388396000939 NAD binding pocket [chemical binding]; other site 388396000940 phosphate binding motif [ion binding]; other site 388396000941 beta-alpha-beta structure motif; other site 388396000942 sulfite reductase subunit beta; Provisional; Region: PRK13504 388396000943 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 388396000944 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 388396000945 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 388396000946 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 388396000947 Active Sites [active] 388396000948 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 388396000949 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 388396000950 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 388396000951 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 388396000952 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 388396000953 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 388396000954 Predicted permeases [General function prediction only]; Region: RarD; COG2962 388396000955 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396000956 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 388396000957 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 388396000958 ligand binding site [chemical binding]; other site 388396000959 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 388396000960 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 388396000961 active site 388396000962 metal binding site [ion binding]; metal-binding site 388396000963 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 388396000964 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 388396000965 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 388396000966 Active Sites [active] 388396000967 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 388396000968 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 388396000969 CysD dimerization site [polypeptide binding]; other site 388396000970 G1 box; other site 388396000971 putative GEF interaction site [polypeptide binding]; other site 388396000972 GTP/Mg2+ binding site [chemical binding]; other site 388396000973 Switch I region; other site 388396000974 G2 box; other site 388396000975 G3 box; other site 388396000976 Switch II region; other site 388396000977 G4 box; other site 388396000978 G5 box; other site 388396000979 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...; Region: CysN_NodQ_II; cd03695 388396000980 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...; Region: CysN_NoDQ_III; cd04095 388396000981 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; cl09110 388396000982 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; cl09110 388396000983 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; cl09110 388396000984 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; cl09110 388396000985 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 important for the assimilation...; Region: APSK; cd02027 388396000986 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 388396000987 ligand-binding site [chemical binding]; other site 388396000988 Protein of unknown function (DUF2806); Region: DUF2806; cl12560 388396000989 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 388396000990 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 388396000991 FtsX-like permease family; Region: FtsX; pfam02687 388396000992 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 388396000993 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 388396000994 Walker A/P-loop; other site 388396000995 ATP binding site [chemical binding]; other site 388396000996 Q-loop/lid; other site 388396000997 ABC transporter signature motif; other site 388396000998 Walker B; other site 388396000999 D-loop; other site 388396001000 H-loop/switch region; other site 388396001001 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 388396001002 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl01158 388396001003 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 388396001004 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 388396001005 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 388396001006 Surface antigen; Region: Bac_surface_Ag; cl03097 388396001007 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 388396001008 Family of unknown function (DUF490); Region: DUF490; pfam04357 388396001009 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 388396001010 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 388396001011 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 388396001012 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 388396001013 substrate binding pocket [chemical binding]; other site 388396001014 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 388396001015 B12 binding site [chemical binding]; other site 388396001016 cobalt ligand [ion binding]; other site 388396001017 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 388396001018 aspartate kinase III; Validated; Region: PRK09084 388396001019 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 388396001020 nucleotide binding site [chemical binding]; other site 388396001021 substrate binding site [chemical binding]; other site 388396001022 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 388396001023 lysine allosteric regulatory site; other site 388396001024 dimer interface [polypeptide binding]; other site 388396001025 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 388396001026 dimer interface [polypeptide binding]; other site 388396001027 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), serine-...; Region: AGAT_like; cd06451 388396001028 homodimer interface [polypeptide binding]; other site 388396001029 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396001030 catalytic residue [active] 388396001031 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 388396001032 O-Antigen ligase; Region: Wzy_C; cl04850 388396001033 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 388396001034 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 388396001035 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 388396001036 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 388396001037 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 388396001038 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 388396001039 active site 388396001040 tetramer interface [polypeptide binding]; other site 388396001041 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 388396001042 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...; Region: GT1_like_6; cd04955 388396001043 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 388396001044 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 388396001045 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 388396001046 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 388396001047 active site 388396001048 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 388396001049 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 388396001050 Chain length determinant protein; Region: Wzz; cl01623 388396001051 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 388396001052 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 388396001053 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 388396001054 SLBB domain; Region: SLBB; pfam10531 388396001055 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 388396001056 Bacterial sugar transferase; Region: Bac_transf; cl00939 388396001057 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 388396001058 dimer interface [polypeptide binding]; other site 388396001059 ssDNA binding site [nucleotide binding]; other site 388396001060 tetramer (dimer of dimers) interface [polypeptide binding]; other site 388396001061 putative single-stranded DNA-binding protein; Region: PHA01740 388396001062 regulatory protein CsrD; Provisional; Region: PRK11059 388396001063 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396001064 metal binding site [ion binding]; metal-binding site 388396001065 active site 388396001066 I-site; other site 388396001067 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 388396001068 General secretion pathway, M protein; Region: GspM; cl01222 388396001069 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 388396001070 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 388396001071 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 388396001072 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...; Region: AAA; cd00009 388396001073 Walker A motif; other site 388396001074 ATP binding site [chemical binding]; other site 388396001075 Walker B motif; other site 388396001076 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 388396001077 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 388396001078 binding surface 388396001079 TPR motif; other site 388396001080 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 388396001081 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 388396001082 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 388396001083 Walker A motif; other site 388396001084 ATP binding site [chemical binding]; other site 388396001085 Walker B motif; other site 388396001086 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 388396001087 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 388396001088 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 388396001089 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 388396001090 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 388396001091 rod shape-determining protein MreB; Provisional; Region: PRK13927 388396001092 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 388396001093 ATP binding site [chemical binding]; other site 388396001094 profilin binding site; other site 388396001095 rod shape-determining protein MreC; Provisional; Region: PRK13922 388396001096 rod shape-determining protein MreC; Region: MreC; pfam04085 388396001097 rod shape-determining protein MreD; Region: MreD; cl01087 388396001098 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 388396001099 active site 388396001100 dimer interface [polypeptide binding]; other site 388396001101 ribonuclease G; Provisional; Region: PRK11712 388396001102 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 388396001103 homodimer interface [polypeptide binding]; other site 388396001104 oligonucleotide binding site [chemical binding]; other site 388396001105 TIGR02099 family protein; Region: TIGR02099 388396001106 Predicted amidohydrolase [General function prediction only]; Region: COG0388 388396001107 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 388396001108 putative active site [active] 388396001109 catalytic triad [active] 388396001110 dimer interface [polypeptide binding]; other site 388396001111 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 388396001112 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 388396001113 Protein of unknown function (DUF615); Region: DUF615; cl01147 388396001114 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 388396001115 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 388396001116 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 388396001117 MgtE intracellular N domain; Region: MgtE_N; cl15244 388396001118 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 388396001119 Divalent cation transporter; Region: MgtE; cl00786 388396001120 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 388396001121 regulatory protein interface [polypeptide binding]; other site 388396001122 active site 388396001123 regulatory phosphorylation site [posttranslational modification]; other site 388396001124 P-loop ATPase protein family; Region: ATP_bind_2; cl10035 388396001125 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 388396001126 active site 388396001127 phosphorylation site [posttranslational modification] 388396001128 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 A site...; Region: RaiA; cd00552 388396001129 30S subunit binding site; other site 388396001130 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 388396001131 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 388396001132 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 388396001133 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 388396001134 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 388396001135 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 388396001136 Walker A/P-loop; other site 388396001137 ATP binding site [chemical binding]; other site 388396001138 Q-loop/lid; other site 388396001139 ABC transporter signature motif; other site 388396001140 Walker B; other site 388396001141 D-loop; other site 388396001142 H-loop/switch region; other site 388396001143 OstA-like protein; Region: OstA; cl00844 388396001144 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 388396001145 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 388396001146 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; cl11391 388396001147 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 388396001148 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 5-...; Region: SIS_Kpsf; cd05014 388396001149 putative active site [active] 388396001150 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 388396001151 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 388396001152 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 388396001153 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 388396001154 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 388396001155 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 388396001156 Walker A/P-loop; other site 388396001157 ATP binding site [chemical binding]; other site 388396001158 Q-loop/lid; other site 388396001159 ABC transporter signature motif; other site 388396001160 Walker B; other site 388396001161 D-loop; other site 388396001162 H-loop/switch region; other site 388396001163 Domain of unknown function DUF140; Region: DUF140; cl00510 388396001164 mce related protein; Region: MCE; cl03606 388396001165 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 388396001166 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 388396001167 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 388396001168 anti sigma factor interaction site; other site 388396001169 regulatory phosphorylation site [posttranslational modification]; other site 388396001170 BolA-like protein; Region: BolA; cl00386 388396001171 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 388396001172 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 388396001173 hinge; other site 388396001174 active site 388396001175 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 388396001176 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 388396001177 putative acyl-acceptor binding pocket; other site 388396001178 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and...; Region: IPP_Isomerase; cd02885 388396001179 active site 388396001180 metal binding site [ion binding]; metal-binding site 388396001181 nudix motif; other site 388396001182 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 388396001183 homotrimer interaction site [polypeptide binding]; other site 388396001184 putative active site [active] 388396001185 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 388396001186 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 388396001187 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 388396001188 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 388396001189 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 388396001190 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 388396001191 ornithine carbamoyltransferase; Validated; Region: PRK02102 388396001192 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 388396001193 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 388396001194 Amidinotransferase; Region: Amidinotransf; cl12043 388396001195 Arginine deiminase [Amino acid transport and metabolism]; Region: ArcA; COG2235 388396001196 Protein of unknown function (DUF1260); Region: DUF1260; cl01170 388396001197 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3076 388396001198 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 388396001199 domain; Region: Glyco_hydro_2; pfam00703 388396001200 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 388396001201 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 388396001202 HIGH motif; other site 388396001203 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 388396001204 active site 388396001205 KMSKS motif; other site 388396001206 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 388396001207 tRNA binding surface [nucleotide binding]; other site 388396001208 anticodon binding site; other site 388396001209 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 388396001210 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 388396001211 multifunctional aminopeptidase A; Provisional; Region: PRK00913 388396001212 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...; Region: Peptidase_M17; cd00433 388396001213 interface (dimer of trimers) [polypeptide binding]; other site 388396001214 Substrate-binding/catalytic site; other site 388396001215 Zn-binding sites [ion binding]; other site 388396001216 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 388396001217 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 388396001218 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 388396001219 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 388396001220 RDD family; Region: RDD; cl00746 388396001221 Protein of unknown function (DUF2999); Region: DUF2999; pfam11212 388396001222 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 388396001223 murein transglycosylase C; Provisional; Region: mltC; PRK11671 388396001224 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 388396001225 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 catalyze...; Region: LT_GEWL; cd00254 388396001226 N-acetyl-D-glucosamine binding site [chemical binding]; other site 388396001227 catalytic residue [active] 388396001228 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 388396001229 adenine DNA glycosylase; Provisional; Region: PRK10880 388396001230 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 388396001231 minor groove reading motif; other site 388396001232 helix-hairpin-helix signature motif; other site 388396001233 substrate binding pocket [chemical binding]; other site 388396001234 active site 388396001235 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 388396001236 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 388396001237 DNA binding and oxoG recognition site [nucleotide binding] 388396001238 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; cl12011 388396001239 Glutaminase; Region: Glutaminase; cl00907 388396001240 HemN family oxidoreductase; Provisional; Region: PRK05660 388396001241 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 388396001242 FeS/SAM binding site; other site 388396001243 HemN C-terminal region; Region: HemN_C; pfam06969 388396001244 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 Ham1-...; Region: HAM1; cd00515 388396001245 active site 388396001246 dimerization interface [polypeptide binding]; other site 388396001247 Uncharacterised ACR, YggU family COG1872; Region: DUF167; cl00811 388396001248 YGGT family; Region: YGGT; cl00508 388396001249 YGGT family; Region: YGGT; cl00508 388396001250 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 388396001251 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396001252 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 388396001253 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 388396001254 catalytic residue [active] 388396001255 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 388396001256 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 388396001257 Walker A motif; other site 388396001258 ATP binding site [chemical binding]; other site 388396001259 Walker B motif; other site 388396001260 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 388396001261 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 388396001262 Walker A motif; other site 388396001263 ATP binding site [chemical binding]; other site 388396001264 Walker B motif; other site 388396001265 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 388396001266 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 388396001267 glutathione synthetase; Provisional; Region: PRK05246 388396001268 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 388396001269 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 388396001270 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 388396001271 DNA-specific endonuclease I; Provisional; Region: PRK15137 388396001272 Endonuclease I; Region: Endonuclease_1; cl01003 388396001273 SprT homologues; Region: SprT; cl01182 388396001274 SprT-like family; Region: SprT-like; pfam10263 388396001275 S-adenosylmethionine synthetase; Validated; Region: PRK05250 388396001276 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 388396001277 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 388396001278 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 388396001279 transketolase; Reviewed; Region: PRK12753 388396001280 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 388396001281 TPP-binding site [chemical binding]; other site 388396001282 dimer interface [polypeptide binding]; other site 388396001283 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 388396001284 PYR/PP interface [polypeptide binding]; other site 388396001285 dimer interface [polypeptide binding]; other site 388396001286 TPP binding site [chemical binding]; other site 388396001287 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 388396001288 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 388396001289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396001290 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 388396001291 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 388396001292 substrate binding site [chemical binding]; other site 388396001293 hinge regions; other site 388396001294 ADP binding site [chemical binding]; other site 388396001295 catalytic site [active] 388396001296 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 388396001297 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 388396001298 active site 388396001299 intersubunit interface [polypeptide binding]; other site 388396001300 zinc binding site [ion binding]; other site 388396001301 Na+ binding site [ion binding]; other site 388396001302 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 388396001303 DEAD-like helicases superfamily; Region: DEXDc; smart00487 388396001304 ATP binding site [chemical binding]; other site 388396001305 Mg++ binding site [ion binding]; other site 388396001306 motif III; other site 388396001307 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 388396001308 nucleotide binding region [chemical binding]; other site 388396001309 ATP-binding site [chemical binding]; other site 388396001310 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 388396001311 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 388396001312 S-adenosylmethionine binding site [chemical binding]; other site 388396001313 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 388396001314 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 388396001315 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 388396001316 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 of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 388396001317 Int/Topo IB signature motif; other site 388396001318 active site 388396001319 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 388396001320 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...; Region: DsbA_DsbC_DsbG; cd03020 388396001321 dimerization domain [polypeptide binding]; other site 388396001322 dimer interface [polypeptide binding]; other site 388396001323 catalytic residues [active] 388396001324 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 388396001325 DHH family; Region: DHH; pfam01368 388396001326 DHHA1 domain; Region: DHHA1; pfam02272 388396001327 RF-1 domain; Region: RF-1; cl02875 388396001328 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 388396001329 RF-1 domain; Region: RF-1; cl02875 388396001330 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 388396001331 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-...; Region: LysRS_N; cd04322 388396001332 dimer interface [polypeptide binding]; other site 388396001333 putative anticodon binding site; other site 388396001334 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 388396001335 motif 1; other site 388396001336 active site 388396001337 motif 2; other site 388396001338 motif 3; other site 388396001339 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 388396001340 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...; Region: AAA; cd00009 388396001341 Walker A motif; other site 388396001342 ATP binding site [chemical binding]; other site 388396001343 Walker B motif; other site 388396001344 arginine finger; other site 388396001345 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 388396001346 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; Region: MutH_Sau3AI; cd00583 388396001347 putative DNA-binding cleft [nucleotide binding]; other site 388396001348 putative DNA clevage site; other site 388396001349 molecular lever; other site 388396001350 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...; Region: Ap4A_hydrolase_plant_like; cd03671 388396001351 putative active site [active] 388396001352 Ap4A binding site [chemical binding]; other site 388396001353 nudix motif; other site 388396001354 putative metal binding site [ion binding]; other site 388396001355 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 388396001356 GAF domain; Region: GAF; cl00853 388396001357 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 388396001358 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 388396001359 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; cl09155 388396001360 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 388396001361 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 388396001362 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 388396001363 dimerization interface [polypeptide binding]; other site 388396001364 active site 388396001365 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 388396001366 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 388396001367 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 388396001368 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396001369 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 388396001370 dimerization interface [polypeptide binding]; other site 388396001371 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 388396001372 dimerization interface [polypeptide binding]; other site 388396001373 putative DNA binding site [nucleotide binding]; other site 388396001374 putative Zn2+ binding site [ion binding]; other site 388396001375 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 388396001376 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 388396001377 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 388396001378 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 388396001379 active site 388396001380 Riboflavin kinase; Region: Flavokinase; pfam01687 388396001381 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 388396001382 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 388396001383 active site 388396001384 HIGH motif; other site 388396001385 nucleotide binding site [chemical binding]; other site 388396001386 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 388396001387 active site 388396001388 KMSKS motif; other site 388396001389 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 388396001390 tRNA binding surface [nucleotide binding]; other site 388396001391 anticodon binding site; other site 388396001392 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 388396001393 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 388396001394 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 388396001395 LytB protein; Region: LYTB; cl00507 388396001396 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 388396001397 dihydrodipicolinate reductase; Provisional; Region: PRK00048 388396001398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396001399 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 388396001400 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 388396001401 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 388396001402 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 388396001403 catalytic site [active] 388396001404 subunit interface [polypeptide binding]; other site 388396001405 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 388396001406 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 388396001407 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 388396001408 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 388396001409 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 388396001410 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 388396001411 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 388396001412 IMP binding site; other site 388396001413 dimer interface [polypeptide binding]; other site 388396001414 interdomain contacts; other site 388396001415 partial ornithine binding site; other site 388396001416 Beta-lactamase; Region: Beta-lactamase; cl01009 388396001417 PBP4 family; Region: PBP4; TIGR00666 388396001418 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...; Region: gram_neg_porins; cd00342 388396001419 trimer interface [polypeptide binding]; other site 388396001420 eyelet of channel; other site 388396001421 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 388396001422 domain; Region: GreA_GreB_N; pfam03449 388396001423 C-term; Region: GreA_GreB; pfam01272 388396001424 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 388396001425 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; cl12011 388396001426 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 388396001427 FtsH Extracellular; Region: FtsH_ext; pfam06480 388396001428 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...; Region: AAA; cd00009 388396001429 Walker A motif; other site 388396001430 ATP binding site [chemical binding]; other site 388396001431 Walker B motif; other site 388396001432 arginine finger; other site 388396001433 Peptidase family M41; Region: Peptidase_M41; pfam01434 388396001434 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 388396001435 dihydropteroate synthase; Region: DHPS; TIGR01496 388396001436 substrate binding pocket [chemical binding]; other site 388396001437 dimer interface [polypeptide binding]; other site 388396001438 inhibitor binding site; inhibition site 388396001439 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 388396001440 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 UDP-N-...; Region: GlmM; cd05802 388396001441 active site 388396001442 substrate binding site [chemical binding]; other site 388396001443 metal binding site [ion binding]; metal-binding site 388396001444 Preprotein translocase SecG subunit; Region: SecG; cl09123 388396001445 ribosome maturation protein RimP; Reviewed; Region: PRK00092 388396001446 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 388396001447 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 388396001448 Sm1 motif; other site 388396001449 predicted subunit interaction site [polypeptide binding]; other site 388396001450 RNA binding pocket [nucleotide binding]; other site 388396001451 Sm2 motif; other site 388396001452 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 388396001453 NusA N-terminal domain; Region: NusA_N; pfam08529 388396001454 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...; Region: S1_NusA; cd04455 388396001455 RNA binding site [nucleotide binding]; other site 388396001456 homodimer interface [polypeptide binding]; other site 388396001457 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 388396001458 G-X-X-G motif; other site 388396001459 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 388396001460 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 388396001461 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 388396001462 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 388396001463 translation initiation factor IF-2; Region: IF-2; TIGR00487 388396001464 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 388396001465 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 388396001466 G1 box; other site 388396001467 putative GEF interaction site [polypeptide binding]; other site 388396001468 GTP/Mg2+ binding site [chemical binding]; other site 388396001469 Switch I region; other site 388396001470 G2 box; other site 388396001471 G3 box; other site 388396001472 Switch II region; other site 388396001473 G4 box; other site 388396001474 G5 box; other site 388396001475 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...; Region: IF2_mtIF2_II; cd03702 388396001476 Translation-initiation factor 2; Region: IF-2; pfam11987 388396001477 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...; Region: mtIF2_IVc; cd03692 388396001478 Ribosome-binding factor A; Region: RBFA; cl00542 388396001479 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 388396001480 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 388396001481 RNA binding site [nucleotide binding]; other site 388396001482 active site 388396001483 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...; Region: Ribosomal_S15p_S13e; cd00353 388396001484 16S/18S rRNA binding site [nucleotide binding]; other site 388396001485 S13e-L30e interaction site [polypeptide binding]; other site 388396001486 25S rRNA binding site [nucleotide binding]; other site 388396001487 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 388396001488 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 388396001489 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 388396001490 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 388396001491 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 388396001492 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 388396001493 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 388396001494 putative nucleic acid binding region [nucleotide binding]; other site 388396001495 G-X-X-G motif; other site 388396001496 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 388396001497 RNA binding site [nucleotide binding]; other site 388396001498 domain interface; other site 388396001499 lipoprotein NlpI; Provisional; Region: PRK11189 388396001500 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 388396001501 binding surface 388396001502 TPR motif; other site 388396001503 Peptidase family U32; Region: Peptidase_U32; cl03113 388396001504 Peptidase family U32; Region: Peptidase_U32; cl03113 388396001505 PAS fold; Region: PAS_4; pfam08448 388396001506 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396001507 metal binding site [ion binding]; metal-binding site 388396001508 active site 388396001509 I-site; other site 388396001510 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 388396001511 SCP-2 sterol transfer family; Region: SCP2; cl01225 388396001512 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 388396001513 Coenzyme A binding pocket [chemical binding]; other site 388396001514 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 388396001515 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 388396001516 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 388396001517 Coenzyme A binding pocket [chemical binding]; other site 388396001518 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 388396001519 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 388396001520 G1 box; other site 388396001521 putative GEF interaction site [polypeptide binding]; other site 388396001522 GTP/Mg2+ binding site [chemical binding]; other site 388396001523 Switch I region; other site 388396001524 G2 box; other site 388396001525 G3 box; other site 388396001526 Switch II region; other site 388396001527 G4 box; other site 388396001528 G5 box; other site 388396001529 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 388396001530 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 388396001531 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 388396001532 active site 388396001533 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 388396001534 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 388396001535 Nucleoside recognition; Region: Gate; cl00486 388396001536 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 388396001537 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 388396001538 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 388396001539 intersubunit interface [polypeptide binding]; other site 388396001540 active site 388396001541 catalytic residue [active] 388396001542 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 388396001543 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 388396001544 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 388396001545 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 388396001546 Sulfatase; Region: Sulfatase; cl10460 388396001547 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 388396001548 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 388396001549 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 388396001550 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 388396001551 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 388396001552 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 388396001553 motif I; other site 388396001554 motif II; other site 388396001555 Flp/Fap pilin component; Region: Flp_Fap; cl01585 388396001556 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 388396001557 SAF domain; Region: SAF; cl00555 388396001558 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 388396001559 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 388396001560 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 388396001561 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 388396001562 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...; Region: VirB11-like_ATPase; cd01130 388396001563 ATP binding site [chemical binding]; other site 388396001564 Walker A motif; other site 388396001565 hexamer interface [polypeptide binding]; other site 388396001566 Walker B motif; other site 388396001567 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 388396001568 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 388396001569 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 388396001570 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 388396001571 binding surface 388396001572 TPR motif; other site 388396001573 flagellar biosynthesis regulator FlhF; Provisional; Region: PRK12724 388396001574 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 388396001575 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 388396001576 ligand binding site [chemical binding]; other site 388396001577 sensor protein PhoQ; Provisional; Region: PRK10815 388396001578 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 388396001579 ATP binding site [chemical binding]; other site 388396001580 Mg2+ binding site [ion binding]; other site 388396001581 G-X-G motif; other site 388396001582 sensor protein PhoQ; Provisional; Region: PRK10815 388396001583 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 388396001584 ATP binding site [chemical binding]; other site 388396001585 Mg2+ binding site [ion binding]; other site 388396001586 G-X-G motif; other site 388396001587 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 388396001588 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 388396001589 active site 388396001590 phosphorylation site [posttranslational modification] 388396001591 intermolecular recognition site; other site 388396001592 dimerization interface [polypeptide binding]; other site 388396001593 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...; Region: trans_reg_C; cd00383 388396001594 DNA binding site [nucleotide binding] 388396001595 PilZ domain; Region: PilZ; cl01260 388396001596 PilZ domain; Region: PilZ; cl01260 388396001597 DNA repair protein RadA; Provisional; Region: PRK11823 388396001598 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 388396001599 Walker A motif/ATP binding site; other site 388396001600 ATP binding site [chemical binding]; other site 388396001601 Walker B motif; other site 388396001602 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 388396001603 elongation factor G; Reviewed; Region: PRK00007 388396001604 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 388396001605 G1 box; other site 388396001606 putative GEF interaction site [polypeptide binding]; other site 388396001607 GTP/Mg2+ binding site [chemical binding]; other site 388396001608 Switch I region; other site 388396001609 G2 box; other site 388396001610 G3 box; other site 388396001611 Switch II region; other site 388396001612 G4 box; other site 388396001613 G5 box; other site 388396001614 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...; Region: EFG_mtEFG_II; cd04088 388396001615 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...; Region: EFG_mtEFG1_IV; cd01434 388396001616 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...; Region: EFG_mtEFG_C; cd03713 388396001617 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 388396001618 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 388396001619 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and...; Region: Bact_CD; cd01293 388396001620 active site 388396001621 Sodium:solute symporter family; Region: SSF; cl00456 388396001622 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 388396001623 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 388396001624 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 388396001625 MutS domain I; Region: MutS_I; pfam01624 388396001626 MutS domain II; Region: MutS_II; pfam05188 388396001627 MutS family domain IV; Region: MutS_IV; pfam05190 388396001628 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 388396001629 Walker A/P-loop; other site 388396001630 ATP binding site [chemical binding]; other site 388396001631 Q-loop/lid; other site 388396001632 ABC transporter signature motif; other site 388396001633 Walker B; other site 388396001634 D-loop; other site 388396001635 H-loop/switch region; other site 388396001636 Competence-damaged protein; Region: CinA; cl00666 388396001637 recombinase A; Provisional; Region: recA; PRK09354 388396001638 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 388396001639 hexamer interface [polypeptide binding]; other site 388396001640 Walker A motif; other site 388396001641 ATP binding site [chemical binding]; other site 388396001642 Walker B motif; other site 388396001643 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 388396001644 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 formation...; Region: AlaRS_core; cd00673 388396001645 motif 1; other site 388396001646 active site 388396001647 motif 2; other site 388396001648 motif 3; other site 388396001649 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 388396001650 DHHA1 domain; Region: DHHA1; pfam02272 388396001651 aspartate kinase; Validated; Region: PRK08841 388396001652 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 388396001653 putative nucleotide binding site [chemical binding]; other site 388396001654 putative catalytic residues [active] 388396001655 putative Mg ion binding site [ion binding]; other site 388396001656 putative aspartate binding site [chemical binding]; other site 388396001657 Global regulator protein family; Region: CsrA; cl00670 388396001658 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 388396001659 oxaloacetate decarboxylase; Provisional; Region: PRK14040 388396001660 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 388396001661 active site 388396001662 catalytic residues [active] 388396001663 metal binding site [ion binding]; metal-binding site 388396001664 homodimer binding site [polypeptide binding]; other site 388396001665 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 388396001666 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 388396001667 carboxyltransferase (CT) interaction site; other site 388396001668 biotinylation site [posttranslational modification]; other site 388396001669 subunit; Region: OAD_beta; cl00816 388396001670 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 388396001671 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 388396001672 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 388396001673 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 388396001674 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 388396001675 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 388396001676 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 388396001677 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl01099 388396001678 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 catalyze...; Region: LT_GEWL; cd00254 388396001679 N-acetyl-D-glucosamine binding site [chemical binding]; other site 388396001680 catalytic residue [active] 388396001681 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 388396001682 Domain of unknown function DUF21; Region: DUF21; pfam01595 388396001683 hypothetical protein; Provisional; Region: PRK11573 388396001684 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 388396001685 Transporter associated domain; Region: CorC_HlyC; pfam03471 388396001686 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 388396001687 signal recognition particle protein; Provisional; Region: PRK10867 388396001688 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 388396001689 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 388396001690 P loop; other site 388396001691 GTP binding site [chemical binding]; other site 388396001692 Signal peptide binding domain; Region: SRP_SPB; pfam02978 388396001693 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 388396001694 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 388396001695 RimM N-terminal domain; Region: RimM; pfam01782 388396001696 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 388396001697 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 388396001698 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 388396001699 NeuB family; Region: NeuB; cl00496 388396001700 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 388396001701 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 388396001702 Chorismate mutase type II; Region: CM_2; cl00693 388396001703 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396001704 Peptidase family M23; Region: Peptidase_M23; pfam01551 388396001705 PilZ domain; Region: PilZ; cl01260 388396001706 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 388396001707 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396001708 Walker A/P-loop; other site 388396001709 ATP binding site [chemical binding]; other site 388396001710 Q-loop/lid; other site 388396001711 ABC transporter signature motif; other site 388396001712 Walker B; other site 388396001713 D-loop; other site 388396001714 H-loop/switch region; other site 388396001715 ABC transporter; Region: ABC_tran_2; pfam12848 388396001716 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 388396001717 lytic murein transglycosylase; Provisional; Region: PRK11619 388396001718 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 catalyze...; Region: LT_GEWL; cd00254 388396001719 N-acetyl-D-glucosamine binding site [chemical binding]; other site 388396001720 catalytic residue [active] 388396001721 Trp repressor protein; Region: Trp_repressor; cl01121 388396001722 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 388396001723 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 388396001724 Chorismate mutase type II; Region: CM_2; cl00693 388396001725 Prephenate dehydratase; Region: PDT; pfam00800 388396001726 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 388396001727 putative L-Phe binding site [chemical binding]; other site 388396001728 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 A site...; Region: RaiA; cd00552 388396001729 30S subunit binding site; other site 388396001730 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 388396001731 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 388396001732 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 388396001733 RNA binding surface [nucleotide binding]; other site 388396001734 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 388396001735 active site 388396001736 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 388396001737 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 388396001738 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 388396001739 Clp amino terminal domain; Region: Clp_N; pfam02861 388396001740 Clp amino terminal domain; Region: Clp_N; pfam02861 388396001741 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...; Region: AAA; cd00009 388396001742 Walker A motif; other site 388396001743 ATP binding site [chemical binding]; other site 388396001744 Walker B motif; other site 388396001745 arginine finger; other site 388396001746 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...; Region: AAA; cd00009 388396001747 Walker A motif; other site 388396001748 ATP binding site [chemical binding]; other site 388396001749 Walker B motif; other site 388396001750 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 388396001751 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 388396001752 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 388396001753 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 388396001754 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 388396001755 Chromate transporter; Region: Chromate_transp; pfam02417 388396001756 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 388396001757 Chromate transporter; Region: Chromate_transp; pfam02417 388396001758 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396001759 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396001760 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 388396001761 putative substrate binding pocket [chemical binding]; other site 388396001762 putative dimerization interface [polypeptide binding]; other site 388396001763 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 388396001764 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 388396001765 putative trimer interface [polypeptide binding]; other site 388396001766 putative CoA binding site [chemical binding]; other site 388396001767 YebG protein; Region: YebG; cl01217 388396001768 Alternative oxidase, ferritin-like diiron-binding domain; Region: AOX; cd01053 388396001769 diiron binding motif [ion binding]; other site 388396001770 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 388396001771 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396001772 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 388396001773 putative dimerization interface [polypeptide binding]; other site 388396001774 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 388396001775 gating phenylalanine in ion channel; other site 388396001776 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 388396001777 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 388396001778 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 388396001779 UvrD/REP helicase; Region: UvrD-helicase; cl14126 388396001780 UvrD/REP helicase; Region: UvrD-helicase; cl14126 388396001781 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 388396001782 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 388396001783 Putative ATPase (DUF699); Region: DUF699; pfam05127 388396001784 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 388396001785 N-acetylglutamate synthase; Validated; Region: PRK05279 388396001786 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 N-...; Region: AAK_NAGS-ABP; cd04237 388396001787 putative feedback inhibition sensing region; other site 388396001788 putative nucleotide binding site [chemical binding]; other site 388396001789 putative substrate binding site [chemical binding]; other site 388396001790 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396001791 Protein of unknown function (DUF2850); Region: DUF2850; pfam11012 388396001792 murein transglycosylase A; Provisional; Region: mltA; PRK11162 388396001793 MltA specific insert domain; Region: MltA; pfam03562 388396001794 3D domain; Region: 3D; cl01439 388396001795 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 388396001796 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-...; Region: YgdL_like; cd00755 388396001797 putative ATP binding site [chemical binding]; other site 388396001798 putative substrate interface [chemical binding]; other site 388396001799 Fe-S metabolism associated domain; Region: SufE; cl00951 388396001800 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 388396001801 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 388396001802 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 388396001803 catalytic residue [active] 388396001804 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 388396001805 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396001806 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 388396001807 dimerization interface [polypeptide binding]; other site 388396001808 substrate binding pocket [chemical binding]; other site 388396001809 Protein of unknown function (DUF423); Region: DUF423; cl01008 388396001810 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 388396001811 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; cl12011 388396001812 flap endonuclease-like protein; Provisional; Region: PRK09482 388396001813 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 388396001814 active site 388396001815 metal binding site 1 [ion binding]; metal-binding site 388396001816 putative 5' ssDNA interaction site; other site 388396001817 metal binding site 3; metal-binding site 388396001818 metal binding site 2 [ion binding]; metal-binding site 388396001819 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 388396001820 putative DNA binding site [nucleotide binding]; other site 388396001821 putative metal binding site [ion binding]; other site 388396001822 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 388396001823 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 388396001824 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 388396001825 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396001826 metal binding site [ion binding]; metal-binding site 388396001827 active site 388396001828 I-site; other site 388396001829 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 388396001830 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 388396001831 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 388396001832 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 388396001833 Syd protein; Region: Syd; cl06405 388396001834 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 388396001835 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 388396001836 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 388396001837 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-...; Region: PTS_IIB_chitobiose_lichenan; cd05564 388396001838 active site 388396001839 P-loop; other site 388396001840 phosphorylation site [posttranslational modification] 388396001841 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 388396001842 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 388396001843 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 388396001844 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 388396001845 methionine cluster; other site 388396001846 active site 388396001847 phosphorylation site [posttranslational modification] 388396001848 metal binding site [ion binding]; metal-binding site 388396001849 Transcriptional regulators [Transcription]; Region: PurR; COG1609 388396001850 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 388396001851 DNA binding site [nucleotide binding] 388396001852 domain linker motif; other site 388396001853 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 388396001854 dimerization interface (closed form) [polypeptide binding]; other site 388396001855 ligand binding site [chemical binding]; other site 388396001856 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...; Region: OM_channels; cl00284 388396001857 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 388396001858 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 388396001859 Domain of unknown function, DUF446; Region: DUF446; cl01187 388396001860 tRNA pseudouridine isomerase C: Pseudouridine synthases catalyze the isomerization of specific uridines in an tRNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. TruC makes psi65 in tRNAs. This psi residue is not...; Region: PseudoU_synth_TruC; cd02563 388396001861 probable active site [active] 388396001862 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 388396001863 active site 388396001864 dimerization interface [polypeptide binding]; other site 388396001865 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 388396001866 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 388396001867 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396001868 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 388396001869 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 388396001870 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 388396001871 catalytic residue [active] 388396001872 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 388396001873 trimerization site [polypeptide binding]; other site 388396001874 active site 388396001875 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 388396001876 co-chaperone HscB; Provisional; Region: hscB; PRK05014 388396001877 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...; Region: DnaJ; cl02542 388396001878 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 388396001879 chaperone protein HscA; Provisional; Region: hscA; PRK05183 388396001880 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 388396001881 catalytic loop [active] 388396001882 iron binding site [ion binding]; other site 388396001883 Protein of unknown function (DUF528); Region: DUF528; cl01123 388396001884 aminopeptidase B; Provisional; Region: PRK05015 388396001885 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...; Region: Peptidase_M17; cd00433 388396001886 interface (dimer of trimers) [polypeptide binding]; other site 388396001887 Substrate-binding/catalytic site; other site 388396001888 Zn-binding sites [ion binding]; other site 388396001889 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 388396001890 active site 388396001891 multimer interface [polypeptide binding]; other site 388396001892 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 388396001893 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; cl14056 388396001894 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 388396001895 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 388396001896 binding surface 388396001897 TPR motif; other site 388396001898 cytoskeletal protein RodZ; Provisional; Region: PRK10856 388396001899 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 388396001900 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 388396001901 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 388396001902 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 388396001903 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 ATP-dependent...; Region: HisRS-like_core; cd00773 388396001904 dimer interface [polypeptide binding]; other site 388396001905 motif 1; other site 388396001906 active site 388396001907 motif 2; other site 388396001908 motif 3; other site 388396001909 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 388396001910 anticodon binding site; other site 388396001911 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 388396001912 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 388396001913 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 388396001914 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 388396001915 Trp docking motif; other site 388396001916 active site 388396001917 GTP-binding protein Der; Reviewed; Region: PRK00093 388396001918 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 388396001919 G1 box; other site 388396001920 GTP/Mg2+ binding site [chemical binding]; other site 388396001921 Switch I region; other site 388396001922 G2 box; other site 388396001923 Switch II region; other site 388396001924 G3 box; other site 388396001925 G4 box; other site 388396001926 G5 box; other site 388396001927 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 388396001928 G1 box; other site 388396001929 GTP/Mg2+ binding site [chemical binding]; other site 388396001930 Switch I region; other site 388396001931 G2 box; other site 388396001932 G3 box; other site 388396001933 Switch II region; other site 388396001934 G4 box; other site 388396001935 G5 box; other site 388396001936 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 388396001937 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 388396001938 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 388396001939 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 388396001940 generic binding surface II; other site 388396001941 generic binding surface I; other site 388396001942 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 388396001943 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; cl09108 388396001944 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 key...; Region: CBS_pair_IMPDH; cd04601 388396001945 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 the...; Region: IMPDH; cd00381 388396001946 active site 388396001947 GMP synthase; Reviewed; Region: guaA; PRK00074 388396001948 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 388396001949 AMP/PPi binding site [chemical binding]; other site 388396001950 candidate oxyanion hole; other site 388396001951 catalytic triad [active] 388396001952 potential glutamine specificity residues [chemical binding]; other site 388396001953 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 388396001954 ATP Binding subdomain [chemical binding]; other site 388396001955 Ligand Binding sites [chemical binding]; other site 388396001956 Dimerization subdomain; other site 388396001957 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 388396001958 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; cl09110 388396001959 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 388396001960 YheO-like PAS domain; Region: PAS_6; pfam08348 388396001961 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 388396001962 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 388396001963 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 388396001964 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 388396001965 homotrimer interaction site [polypeptide binding]; other site 388396001966 putative active site [active] 388396001967 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 388396001968 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 388396001969 Predicted esterase [General function prediction only]; Region: COG0627 388396001970 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 388396001971 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 388396001972 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 388396001973 substrate binding site [chemical binding]; other site 388396001974 catalytic Zn binding site [ion binding]; other site 388396001975 NAD binding site [chemical binding]; other site 388396001976 structural Zn binding site [ion binding]; other site 388396001977 dimer interface [polypeptide binding]; other site 388396001978 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 388396001979 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 388396001980 catalytic residues [active] 388396001981 hinge region; other site 388396001982 alpha helical domain; other site 388396001983 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 388396001984 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 388396001985 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 388396001986 substrate binding site [chemical binding]; other site 388396001987 catalytic Zn binding site [ion binding]; other site 388396001988 NAD binding site [chemical binding]; other site 388396001989 structural Zn binding site [ion binding]; other site 388396001990 dimer interface [polypeptide binding]; other site 388396001991 LysR family transcriptional regulator; Provisional; Region: PRK14997 388396001992 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396001993 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 388396001994 dimerization interface [polypeptide binding]; other site 388396001995 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 388396001996 nucleoside/Zn binding site; other site 388396001997 dimer interface [polypeptide binding]; other site 388396001998 catalytic motif [active] 388396001999 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 388396002000 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...; Region: PBPb; cd00134 388396002001 substrate binding pocket [chemical binding]; other site 388396002002 membrane-bound complex binding site; other site 388396002003 hinge residues; other site 388396002004 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 catalyze...; Region: LT_GEWL; cd00254 388396002005 N-acetyl-D-glucosamine binding site [chemical binding]; other site 388396002006 catalytic residue [active] 388396002007 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 388396002008 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 388396002009 dimerization interface [polypeptide binding]; other site 388396002010 ATP binding site [chemical binding]; other site 388396002011 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal...; Region: PurM-like; cl10019 388396002012 dimerization interface [polypeptide binding]; other site 388396002013 ATP binding site [chemical binding]; other site 388396002014 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 388396002015 putative active site [active] 388396002016 catalytic triad [active] 388396002017 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 388396002018 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 388396002019 Protein of unknown function (DUF3622); Region: DUF3622; pfam12286 388396002020 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 388396002021 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 388396002022 chitin/cellulose binding site [chemical binding]; other site 388396002023 N-acetylglucosamine-binding protein A; Reviewed; Region: PRK13211 388396002024 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 388396002025 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18 (...; Region: GH18_chitinase_D-like; cd02871 388396002026 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 388396002027 putative active site [active] 388396002028 C-term; Region: GreA_GreB; pfam01272 388396002029 Predicted deacylase [General function prediction only]; Region: COG3608 388396002030 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the...; Region: M14_ASTE_ASPA_like_1; cd06251 388396002031 putative active site [active] 388396002032 Zn-binding site [ion binding]; other site 388396002033 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 388396002034 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 388396002035 Protein of unknown function (DUF785); Region: DUF785; cl01682 388396002036 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 388396002037 Uncharacterised protein family (UPF0253); Region: UPF0253; cl11640 388396002038 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 388396002039 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; cl09108 388396002040 catalytic residue [active] 388396002041 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 388396002042 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...; Region: SIS_RpiR; cd05013 388396002043 putative active site [active] 388396002044 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 388396002045 active site 388396002046 dimer interface [polypeptide binding]; other site 388396002047 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family...; Region: NanE; cd04729 388396002048 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 388396002049 putative active site cavity [active] 388396002050 N-acetylmannosamine kinase; Provisional; Region: PRK05082 388396002051 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 388396002052 Sodium:solute symporter family; Region: SSF; cl00456 388396002053 Domain of unknown function (DUF386); Region: DUF386; cl01047 388396002054 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 388396002055 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 388396002056 UreF; Region: UreF; pfam01730 388396002057 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The C-...; Region: UreE; cd00571 388396002058 dimer interface [polypeptide binding]; other site 388396002059 catalytic residues [active] 388396002060 urease subunit alpha; Reviewed; Region: ureC; PRK13207 388396002061 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 388396002062 subunit interactions [polypeptide binding]; other site 388396002063 active site 388396002064 flap region; other site 388396002065 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_beta; cd00407 388396002066 gamma-beta subunit interface [polypeptide binding]; other site 388396002067 alpha-beta subunit interface [polypeptide binding]; other site 388396002068 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 388396002069 alpha-gamma subunit interface [polypeptide binding]; other site 388396002070 beta-gamma subunit interface [polypeptide binding]; other site 388396002071 UreD urease accessory protein; Region: UreD; cl00530 388396002072 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 388396002073 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396002074 Walker A/P-loop; other site 388396002075 ATP binding site [chemical binding]; other site 388396002076 Q-loop/lid; other site 388396002077 ABC transporter signature motif; other site 388396002078 Walker B; other site 388396002079 D-loop; other site 388396002080 H-loop/switch region; other site 388396002081 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396002082 Q-loop/lid; other site 388396002083 ABC transporter signature motif; other site 388396002084 Walker B; other site 388396002085 D-loop; other site 388396002086 H-loop/switch region; other site 388396002087 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 388396002088 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 388396002089 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 388396002090 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 388396002091 prolyl-tRNA synthetase; Provisional; Region: PRK09194 388396002092 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 formation...; Region: ProRS_core_prok; cd00779 388396002093 dimer interface [polypeptide binding]; other site 388396002094 motif 1; other site 388396002095 active site 388396002096 motif 2; other site 388396002097 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 single-...; Region: ProRS-INS; cd04334 388396002098 putative deacylase active site [active] 388396002099 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 388396002100 active site 388396002101 motif 3; other site 388396002102 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-...; Region: ProRS_anticodon_short; cd00861 388396002103 anticodon binding site; other site 388396002104 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 388396002105 homodimer interaction site [polypeptide binding]; other site 388396002106 cofactor binding site; other site 388396002107 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 388396002108 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396002109 dimer interface [polypeptide binding]; other site 388396002110 conserved gate region; other site 388396002111 ABC-ATPase subunit interface; other site 388396002112 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 388396002113 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein; Region: ABC_MetN_methionine_transporter; cd03258 388396002114 Walker A/P-loop; other site 388396002115 ATP binding site [chemical binding]; other site 388396002116 Q-loop/lid; other site 388396002117 ABC transporter signature motif; other site 388396002118 Walker B; other site 388396002119 D-loop; other site 388396002120 H-loop/switch region; other site 388396002121 NIL domain; Region: NIL; pfam09383 388396002122 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 388396002123 active site 388396002124 motif I; other site 388396002125 motif II; other site 388396002126 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 388396002127 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396002128 dimer interface [polypeptide binding]; other site 388396002129 conserved gate region; other site 388396002130 putative PBP binding loops; other site 388396002131 ABC-ATPase subunit interface; other site 388396002132 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 388396002133 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396002134 dimer interface [polypeptide binding]; other site 388396002135 conserved gate region; other site 388396002136 putative PBP binding loops; other site 388396002137 ABC-ATPase subunit interface; other site 388396002138 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 388396002139 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 388396002140 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 388396002141 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 388396002142 Walker A/P-loop; other site 388396002143 ATP binding site [chemical binding]; other site 388396002144 Q-loop/lid; other site 388396002145 ABC transporter signature motif; other site 388396002146 Walker B; other site 388396002147 D-loop; other site 388396002148 H-loop/switch region; other site 388396002149 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 388396002150 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 388396002151 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 388396002152 Walker A/P-loop; other site 388396002153 ATP binding site [chemical binding]; other site 388396002154 Q-loop/lid; other site 388396002155 ABC transporter signature motif; other site 388396002156 Walker B; other site 388396002157 D-loop; other site 388396002158 H-loop/switch region; other site 388396002159 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 388396002160 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 388396002161 Uncharacterized conserved protein [Function unknown]; Region: COG1284 388396002162 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...; Region: SHMT; cd00378 388396002163 dimer interface [polypeptide binding]; other site 388396002164 glycine-pyridoxal phosphate binding site [chemical binding]; other site 388396002165 active site 388396002166 folate binding site [chemical binding]; other site 388396002167 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 388396002168 Nitrate and nitrite sensing; Region: NIT; pfam08376 388396002169 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396002170 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396002171 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 388396002172 ATP cone domain; Region: ATP-cone; pfam03477 388396002173 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 388396002174 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 388396002175 catalytic motif [active] 388396002176 Zn binding site [ion binding]; other site 388396002177 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 5,10-...; Region: DHFR; cl00161 388396002178 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 388396002179 Lumazine binding domain; Region: Lum_binding; pfam00677 388396002180 Lumazine binding domain; Region: Lum_binding; pfam00677 388396002181 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 388396002182 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 388396002183 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; cl00522 388396002184 dimerization interface [polypeptide binding]; other site 388396002185 active site 388396002186 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 388396002187 homopentamer interface [polypeptide binding]; other site 388396002188 active site 388396002189 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 rRNA-...; Region: NusB_Sun; cl00223 388396002190 putative RNA binding site [nucleotide binding]; other site 388396002191 thiamine monophosphate kinase; Provisional; Region: PRK05731 388396002192 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 388396002193 ATP binding site [chemical binding]; other site 388396002194 dimerization interface [polypeptide binding]; other site 388396002195 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 388396002196 tetramer interfaces [polypeptide binding]; other site 388396002197 binuclear metal-binding site [ion binding]; other site 388396002198 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 388396002199 Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs; Region: PBP1_LuxPQ_Quorum_Sensing; cd06303 388396002200 ligand binding site [chemical binding]; other site 388396002201 subunit interaction site [polypeptide binding]; other site 388396002202 calcium binding site [ion binding]; other site 388396002203 LuxQ, periplasmic; Region: LuxQ-periplasm; pfam09308 388396002204 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 388396002205 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 trans-...; Region: HisKA; cd00082 388396002206 dimer interface [polypeptide binding]; other site 388396002207 phosphorylation site [posttranslational modification] 388396002208 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 388396002209 ATP binding site [chemical binding]; other site 388396002210 Mg2+ binding site [ion binding]; other site 388396002211 G-X-G motif; other site 388396002212 Response regulator receiver domain; Region: Response_reg; pfam00072 388396002213 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 388396002214 active site 388396002215 phosphorylation site [posttranslational modification] 388396002216 intermolecular recognition site; other site 388396002217 dimerization interface [polypeptide binding]; other site 388396002218 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 388396002219 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 388396002220 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 388396002221 TPP-binding site; other site 388396002222 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 388396002223 PYR/PP interface [polypeptide binding]; other site 388396002224 dimer interface [polypeptide binding]; other site 388396002225 TPP binding site [chemical binding]; other site 388396002226 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 388396002227 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 388396002228 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 388396002229 substrate binding pocket [chemical binding]; other site 388396002230 chain length determination region; other site 388396002231 substrate-Mg2+ binding site; other site 388396002232 catalytic residues [active] 388396002233 aspartate-rich region 1; other site 388396002234 active site lid residues [active] 388396002235 aspartate-rich region 2; other site 388396002236 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 388396002237 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 388396002238 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 388396002239 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 388396002240 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 388396002241 ligand binding site [chemical binding]; other site 388396002242 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 388396002243 THUMP domain; Region: THUMP; cl12076 388396002244 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 388396002245 Ligand Binding Site [chemical binding]; other site 388396002246 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 388396002247 active site residue [active] 388396002248 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 388396002249 conserved cys residue [active] 388396002250 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 388396002251 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396002252 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 388396002253 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 388396002254 muropeptide transporter; Reviewed; Region: ampG; PRK11902 388396002255 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; cl11420 388396002256 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 388396002257 active site 388396002258 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 388396002259 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 388396002260 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 388396002261 S-adenosylmethionine binding site [chemical binding]; other site 388396002262 BolA-like protein; Region: BolA; cl00386 388396002263 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 388396002264 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 388396002265 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 388396002266 FMN-binding domain; Region: FMN_bind; cl01081 388396002267 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 388396002268 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 388396002269 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 388396002270 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 388396002271 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+...; Region: NADH_quinone_reductase; cd06188 388396002272 FAD binding pocket [chemical binding]; other site 388396002273 FAD binding motif [chemical binding]; other site 388396002274 phosphate binding motif [ion binding]; other site 388396002275 beta-alpha-beta structure motif; other site 388396002276 NAD binding pocket [chemical binding]; other site 388396002277 ApbE family; Region: ApbE; cl00643 388396002278 Protein of unknown function (DUF539); Region: DUF539; cl01129 388396002279 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 388396002280 active site 388396002281 DNA polymerase IV; Validated; Region: PRK02406 388396002282 DNA binding site [nucleotide binding] 388396002283 alanine racemase; Reviewed; Region: PRK13340 388396002284 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2; Region: PLPDE_III_AR2; cd06826 388396002285 active site 388396002286 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 388396002287 dimer interface [polypeptide binding]; other site 388396002288 substrate binding site [chemical binding]; other site 388396002289 catalytic residues [active] 388396002290 aminoacyl-histidine dipeptidase; Region: aa-his-dipept; TIGR01893 388396002291 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 388396002292 metal binding site [ion binding]; metal-binding site 388396002293 dimer interface [polypeptide binding]; other site 388396002294 Sulfate transporter family; Region: Sulfate_transp; cl00967 388396002295 Permease family; Region: Xan_ur_permease; pfam00860 388396002296 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 388396002297 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 388396002298 gamma-glutamyl kinase; Provisional; Region: PRK05429 388396002299 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 388396002300 homotetrameric interface [polypeptide binding]; other site 388396002301 putative phosphate binding site [ion binding]; other site 388396002302 putative allosteric binding site; other site 388396002303 nucleotide binding site [chemical binding]; other site 388396002304 PUA domain; Region: PUA; cl00607 388396002305 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 388396002306 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 388396002307 putative catalytic cysteine [active] 388396002308 lipoyl synthase; Provisional; Region: PRK05481 388396002309 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; cl14056 388396002310 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 388396002311 Protein of unknown function (DUF493); Region: DUF493; cl01102 388396002312 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 388396002313 Beta-lactamase; Region: Beta-lactamase; cl01009 388396002314 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 388396002315 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 388396002316 rare lipoprotein A; Region: rlpA; TIGR00413 388396002317 Sporulation related domain; Region: SPOR; cl10051 388396002318 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 388396002319 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 388396002320 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 388396002321 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 388396002322 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 388396002323 Domain of unknown function DUF143; Region: DUF143; cl00519 388396002324 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 388396002325 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 388396002326 Lipopolysaccharide-assembly; Region: LptE; cl01125 388396002327 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 388396002328 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 388396002329 HIGH motif; other site 388396002330 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 388396002331 active site 388396002332 KMSKS motif; other site 388396002333 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 388396002334 tRNA binding surface [nucleotide binding]; other site 388396002335 hypothetical protein; Provisional; Region: PRK11032 388396002336 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 388396002337 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 388396002338 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 388396002339 putative active site [active] 388396002340 catalytic triad [active] 388396002341 putative dimer interface [polypeptide binding]; other site 388396002342 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 388396002343 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 388396002344 Transporter associated domain; Region: CorC_HlyC; pfam03471 388396002345 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 388396002346 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 388396002347 PhoH-like protein; Region: PhoH; cl12134 388396002348 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 388396002349 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 388396002350 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 388396002351 FeS/SAM binding site; other site 388396002352 TRAM domain; Region: TRAM; cl01282 388396002353 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396002354 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 388396002355 GTP-binding protein YchF; Reviewed; Region: PRK09601 388396002356 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 388396002357 G1 box; other site 388396002358 GTP/Mg2+ binding site [chemical binding]; other site 388396002359 Switch I region; other site 388396002360 G2 box; other site 388396002361 Switch II region; other site 388396002362 G3 box; other site 388396002363 G4 box; other site 388396002364 G5 box; other site 388396002365 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 388396002366 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 388396002367 putative active site [active] 388396002368 catalytic residue [active] 388396002369 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 388396002370 ribose-phosphate pyrophosphokinase; Region: ribP_PPkin; TIGR01251 388396002371 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 388396002372 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 388396002373 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 388396002374 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 388396002375 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 388396002376 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 388396002377 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 388396002378 tRNA; other site 388396002379 putative tRNA binding site [nucleotide binding]; other site 388396002380 putative NADP binding site [chemical binding]; other site 388396002381 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 388396002382 peptide chain release factor 1; Validated; Region: prfA; PRK00591 388396002383 RF-1 domain; Region: RF-1; cl02875 388396002384 RF-1 domain; Region: RF-1; cl02875 388396002385 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 388396002386 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 388396002387 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 388396002388 Uncharacterized conserved protein [Function unknown]; Region: COG2912 388396002389 hypothetical protein; Provisional; Region: PRK10941 388396002390 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 388396002391 NeuB family; Region: NeuB; cl00496 388396002392 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 388396002393 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 388396002394 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain...; Region: Rieske_NirD; cd03529 388396002395 nitrite reductase subunit NirD; Provisional; Region: PRK14989 388396002396 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 388396002397 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 388396002398 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 388396002399 Cache domain; Region: Cache_1; pfam02743 388396002400 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396002401 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396002402 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396002403 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 388396002404 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 388396002405 active site 388396002406 metal binding site [ion binding]; metal-binding site 388396002407 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 388396002408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 388396002409 Smr domain; Region: Smr; cl02619 388396002410 Protein of unknown function, DUF; Region: DUF411; cl01142 388396002411 copper exporting ATPase; Provisional; Region: copA; PRK10671 388396002412 copper exporting ATPase; Provisional; Region: copA; PRK10671 388396002413 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 388396002414 metal-binding site [ion binding] 388396002415 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 388396002416 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; cl11391 388396002417 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 388396002418 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 388396002419 DNA binding residues [nucleotide binding] 388396002420 dimer interface [polypeptide binding]; other site 388396002421 copper binding site [ion binding]; other site 388396002422 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 388396002423 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 388396002424 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 388396002425 short chain dehydrogenase; Provisional; Region: PRK05693 388396002426 NADP binding site [chemical binding]; other site 388396002427 active site 388396002428 steroid binding site; other site 388396002429 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 388396002430 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 388396002431 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396002432 dimer interface [polypeptide binding]; other site 388396002433 conserved gate region; other site 388396002434 putative PBP binding loops; other site 388396002435 ABC-ATPase subunit interface; other site 388396002436 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 388396002437 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 388396002438 Walker A/P-loop; other site 388396002439 ATP binding site [chemical binding]; other site 388396002440 Q-loop/lid; other site 388396002441 ABC transporter signature motif; other site 388396002442 Walker B; other site 388396002443 D-loop; other site 388396002444 H-loop/switch region; other site 388396002445 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 388396002446 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396002447 TIGR01777 family protein; Region: yfcH 388396002448 NAD(P) binding site [chemical binding]; other site 388396002449 active site 388396002450 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 388396002451 active site 388396002452 metal binding site [ion binding]; metal-binding site 388396002453 homotetramer interface [polypeptide binding]; other site 388396002454 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...; Region: trans_reg_C; cd00383 388396002455 DNA binding site [nucleotide binding] 388396002456 heat shock protein 90; Provisional; Region: PRK05218 388396002457 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 388396002458 adenylate kinase; Reviewed; Region: adk; PRK00279 388396002459 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 388396002460 AMP-binding site [chemical binding]; other site 388396002461 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 388396002462 ferrochelatase; Reviewed; Region: hemH; PRK00035 388396002463 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 388396002464 C-terminal domain interface [polypeptide binding]; other site 388396002465 active site 388396002466 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 388396002467 active site 388396002468 N-terminal domain interface [polypeptide binding]; other site 388396002469 trigger factor; Provisional; Region: tig; PRK01490 388396002470 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 388396002471 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 388396002472 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 388396002473 oligomer interface [polypeptide binding]; other site 388396002474 active site residues [active] 388396002475 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 388396002476 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 388396002477 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...; Region: AAA; cd00009 388396002478 Walker A motif; other site 388396002479 ATP binding site [chemical binding]; other site 388396002480 Walker B motif; other site 388396002481 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 388396002482 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 388396002483 Found in ATP-dependent protease La (LON); Region: LON; cl01056 388396002484 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...; Region: AAA; cd00009 388396002485 Walker A motif; other site 388396002486 ATP binding site [chemical binding]; other site 388396002487 Walker B motif; other site 388396002488 arginine finger; other site 388396002489 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 388396002490 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 higher-...; Region: HU_IHF; cd00591 388396002491 IHF dimer interface [polypeptide binding]; other site 388396002492 IHF - DNA interface [nucleotide binding]; other site 388396002493 periplasmic folding chaperone; Provisional; Region: PRK10788 388396002494 SurA N-terminal domain; Region: SurA_N; pfam09312 388396002495 PPIC-type PPIASE domain; Region: Rotamase; cl08278 388396002496 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 388396002497 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 388396002498 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 388396002499 putative substrate translocation pore; other site 388396002500 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 388396002501 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 388396002502 asparagine synthetase B; Provisional; Region: asnB; PRK09431 388396002503 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 388396002504 active site 388396002505 dimer interface [polypeptide binding]; other site 388396002506 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...; Region: Asn_Synthase_B_C; cd01991 388396002507 Ligand Binding Site [chemical binding]; other site 388396002508 Molecular Tunnel; other site 388396002509 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 388396002510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396002511 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396002512 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 388396002513 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 388396002514 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 388396002515 active site 388396002516 dimer interface [polypeptide binding]; other site 388396002517 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 388396002518 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 388396002519 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...; Region: PTS_IIB_glc; cd00212 388396002520 active site turn [active] 388396002521 phosphorylation site [posttranslational modification] 388396002522 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 388396002523 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 388396002524 active site 388396002525 HIGH motif; other site 388396002526 nucleotide binding site [chemical binding]; other site 388396002527 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 388396002528 KMSKS motif; other site 388396002529 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 388396002530 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 388396002531 metal binding site 2 [ion binding]; metal-binding site 388396002532 putative DNA binding helix; other site 388396002533 metal binding site 1 [ion binding]; metal-binding site 388396002534 dimer interface [polypeptide binding]; other site 388396002535 structural Zn2+ binding site [ion binding]; other site 388396002536 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 388396002537 CoenzymeA binding site [chemical binding]; other site 388396002538 subunit interaction site [polypeptide binding]; other site 388396002539 PHB binding site; other site 388396002540 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 388396002541 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 388396002542 acyl-CoA esterase; Provisional; Region: PRK10673 388396002543 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 388396002544 SeqA protein; Region: SeqA; cl11470 388396002545 phosphoglucomutase; Validated; Region: PRK07564 388396002546 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 388396002547 active site 388396002548 substrate binding site [chemical binding]; other site 388396002549 metal binding site [ion binding]; metal-binding site 388396002550 Uncharacterized conserved protein [Function unknown]; Region: COG0327 388396002551 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 388396002552 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 388396002553 dimer interface [polypeptide binding]; other site 388396002554 Citrate synthase; Region: Citrate_synt; pfam00285 388396002555 active site 388396002556 citrylCoA binding site [chemical binding]; other site 388396002557 NADH binding [chemical binding]; other site 388396002558 cationic pore residues; other site 388396002559 oxalacetate/citrate binding site [chemical binding]; other site 388396002560 coenzyme A binding site [chemical binding]; other site 388396002561 catalytic triad [active] 388396002562 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 388396002563 proximal heme binding site [chemical binding]; other site 388396002564 SdhD (CybS) interface [polypeptide binding]; other site 388396002565 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 388396002566 SdhC subunit interface [polypeptide binding]; other site 388396002567 proximal heme binding site [chemical binding]; other site 388396002568 cardiolipin binding site; other site 388396002569 Iron-sulfur protein interface; other site 388396002570 proximal quinone binding site [chemical binding]; other site 388396002571 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 388396002572 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396002573 domain; Region: Succ_DH_flav_C; pfam02910 388396002574 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 388396002575 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 388396002576 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 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 388396002577 TPP-binding site [chemical binding]; other site 388396002578 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 388396002579 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 388396002580 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 388396002581 E3 interaction surface; other site 388396002582 lipoyl attachment site [posttranslational modification]; other site 388396002583 e3 binding domain; Region: E3_binding; pfam02817 388396002584 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 388396002585 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 388396002586 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 388396002587 CoA-ligase; Region: Ligase_CoA; pfam00549 388396002588 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 388396002589 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396002590 CoA-ligase; Region: Ligase_CoA; pfam00549 388396002591 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 388396002592 Cache domain; Region: Cache_2; pfam08269 388396002593 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396002594 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396002595 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...; Region: TM_ABC_iron-siderophores_like; cd06550 388396002596 ABC-ATPase subunit interface; other site 388396002597 dimer interface [polypeptide binding]; other site 388396002598 putative PBP binding regions; other site 388396002599 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 388396002600 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 388396002601 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 388396002602 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 388396002603 metal binding site [ion binding]; metal-binding site 388396002604 putative peptidase; Provisional; Region: PRK11649 388396002605 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 388396002606 Peptidase family M23; Region: Peptidase_M23; pfam01551 388396002607 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 388396002608 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 388396002609 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 388396002610 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 388396002611 FeoA domain; Region: FeoA; cl00838 388396002612 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 388396002613 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 388396002614 G1 box; other site 388396002615 GTP/Mg2+ binding site [chemical binding]; other site 388396002616 Switch I region; other site 388396002617 G2 box; other site 388396002618 G3 box; other site 388396002619 Switch II region; other site 388396002620 G4 box; other site 388396002621 G5 box; other site 388396002622 Nucleoside recognition; Region: Gate; cl00486 388396002623 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 388396002624 Nucleoside recognition; Region: Gate; cl00486 388396002625 FeoC like transcriptional regulator; Region: FeoC; cl07573 388396002626 phosphate acetyltransferase; Reviewed; Region: PRK05632 388396002627 DRTGG domain; Region: DRTGG; cl12147 388396002628 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 388396002629 Acetokinase family; Region: Acetate_kinase; cl01029 388396002630 Protein of unknown function, DUF412; Region: DUF412; cl01183 388396002631 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 388396002632 arginyl-tRNA synthetase; Region: argS; TIGR00456 388396002633 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 388396002634 active site 388396002635 HIGH motif; other site 388396002636 KMSK motif region; other site 388396002637 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 388396002638 tRNA binding surface [nucleotide binding]; other site 388396002639 anticodon binding site; other site 388396002640 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 388396002641 putative metal binding site [ion binding]; other site 388396002642 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 388396002643 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396002644 O-methyltransferase; Region: Methyltransf_2; pfam00891 388396002645 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 388396002646 putative acyl-acceptor binding pocket; other site 388396002647 Phosphopantetheine attachment site; Region: PP-binding; cl09936 388396002648 Phosphopantetheine attachment site; Region: PP-binding; cl09936 388396002649 Predicted membrane protein [Function unknown]; Region: COG4648 388396002650 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 388396002651 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 388396002652 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...; Region: FabA_FabZ; cd00493 388396002653 active site 2 [active] 388396002654 dimer interface [polypeptide binding]; other site 388396002655 active site 1 [active] 388396002656 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 388396002657 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 388396002658 Ligand binding site [chemical binding]; other site 388396002659 Putative Catalytic site [active] 388396002660 DXD motif; other site 388396002661 Predicted acyltransferase [General function prediction only]; Region: COG4261 388396002662 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 388396002663 putative acyl-acceptor binding pocket; other site 388396002664 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 388396002665 active sites [active] 388396002666 tetramer interface [polypeptide binding]; other site 388396002667 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...; Region: 4HBT; cd00586 388396002668 active site 388396002669 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 388396002670 Predicted exporter [General function prediction only]; Region: COG4258 388396002671 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 388396002672 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 388396002673 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 388396002674 dimer interface [polypeptide binding]; other site 388396002675 active site 388396002676 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 388396002677 putative active site 1 [active] 388396002678 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 388396002679 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 388396002680 NAD(P) binding site [chemical binding]; other site 388396002681 homotetramer interface [polypeptide binding]; other site 388396002682 homodimer interface [polypeptide binding]; other site 388396002683 active site 388396002684 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 388396002685 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 388396002686 dimer interface [polypeptide binding]; other site 388396002687 active site 388396002688 META domain; Region: META; cl01245 388396002689 Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this...; Region: Ribosomal_L25_TL5_CTC; cd00495 388396002690 5S rRNA interface [nucleotide binding]; other site 388396002691 CTC domain interface; other site 388396002692 L16 interface [polypeptide binding]; other site 388396002693 Cytochrome C'; Region: Cytochrom_C_2; cl01610 388396002694 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 388396002695 ATP binding site [chemical binding]; other site 388396002696 putative Mg++ binding site [ion binding]; other site 388396002697 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 388396002698 nucleotide binding region [chemical binding]; other site 388396002699 ATP-binding site [chemical binding]; other site 388396002700 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 388396002701 putative active site [active] 388396002702 catalytic site [active] 388396002703 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 388396002704 putative active site [active] 388396002705 catalytic site [active] 388396002706 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396002707 Fic family protein [Function unknown]; Region: COG3177 388396002708 Fic/DOC family; Region: Fic; cl00960 388396002709 Domain of unknown function DUF87; Region: DUF87; pfam01935 388396002710 HerA helicase [Replication, recombination, and repair]; Region: COG0433 388396002711 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13021 388396002712 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 388396002713 Protein export membrane protein; Region: SecD_SecF; cl14618 388396002714 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 388396002715 Protein export membrane protein; Region: SecD_SecF; cl14618 388396002716 LysR family transcriptional regulator; Provisional; Region: PRK14997 388396002717 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396002718 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 388396002719 putative effector binding pocket; other site 388396002720 dimerization interface [polypeptide binding]; other site 388396002721 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 388396002722 Outer membrane efflux protein; Region: OEP; pfam02321 388396002723 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 388396002724 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 388396002725 putative substrate translocation pore; other site 388396002726 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 388396002727 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 388396002728 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 388396002729 active site 388396002730 uracil binding [chemical binding]; other site 388396002731 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 388396002732 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 388396002733 putative substrate translocation pore; other site 388396002734 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 388396002735 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 388396002736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396002737 NAD(P) binding site [chemical binding]; other site 388396002738 active site 388396002739 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 388396002740 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 388396002741 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 388396002742 Walker A/P-loop; other site 388396002743 ATP binding site [chemical binding]; other site 388396002744 Q-loop/lid; other site 388396002745 ABC transporter signature motif; other site 388396002746 Walker B; other site 388396002747 D-loop; other site 388396002748 H-loop/switch region; other site 388396002749 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 388396002750 FtsX-like permease family; Region: FtsX; pfam02687 388396002751 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 388396002752 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 388396002753 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 388396002754 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 388396002755 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396002756 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 388396002757 putative transporter; Provisional; Region: PRK04972 388396002758 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 388396002759 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; cl09110 388396002760 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; cl09110 388396002761 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 388396002762 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 388396002763 GSH binding site [chemical binding]; other site 388396002764 catalytic residues [active] 388396002765 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 388396002766 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...; Region: SIS_RpiR; cd05013 388396002767 putative active site [active] 388396002768 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 388396002769 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 388396002770 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 388396002771 catalytic residue [active] 388396002772 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 388396002773 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 388396002774 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 388396002775 TfoX N-terminal domain; Region: TfoX_N; cl01167 388396002776 TfoX N-terminal domain; Region: TfoX_N; cl01167 388396002777 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 388396002778 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active...; Region: PSAT_like; cd00611 388396002779 homodimer interface [polypeptide binding]; other site 388396002780 substrate-cofactor binding pocket; other site 388396002781 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396002782 catalytic residue [active] 388396002783 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 388396002784 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396002785 Walker A/P-loop; other site 388396002786 ATP binding site [chemical binding]; other site 388396002787 Q-loop/lid; other site 388396002788 ABC transporter signature motif; other site 388396002789 Walker B; other site 388396002790 D-loop; other site 388396002791 H-loop/switch region; other site 388396002792 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 388396002793 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 388396002794 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396002795 Walker A/P-loop; other site 388396002796 ATP binding site [chemical binding]; other site 388396002797 Q-loop/lid; other site 388396002798 ABC transporter signature motif; other site 388396002799 Walker B; other site 388396002800 D-loop; other site 388396002801 H-loop/switch region; other site 388396002802 thioredoxin reductase; Provisional; Region: PRK10262 388396002803 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396002804 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 388396002805 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 388396002806 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396002807 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 388396002808 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396002809 DNA translocase FtsK; Provisional; Region: PRK10263 388396002810 DNA translocase FtsK; Provisional; Region: PRK10263 388396002811 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396002812 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 388396002813 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 388396002814 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 388396002815 recombination factor protein RarA; Reviewed; Region: PRK13342 388396002816 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...; Region: AAA; cd00009 388396002817 Walker A motif; other site 388396002818 ATP binding site [chemical binding]; other site 388396002819 Walker B motif; other site 388396002820 arginine finger; other site 388396002821 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 388396002822 seryl-tRNA synthetase; Provisional; Region: PRK05431 388396002823 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 388396002824 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 388396002825 dimer interface [polypeptide binding]; other site 388396002826 active site 388396002827 motif 1; other site 388396002828 motif 2; other site 388396002829 motif 3; other site 388396002830 thioredoxin 2; Provisional; Region: PRK10996 388396002831 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 388396002832 catalytic residues [active] 388396002833 Protein of unknown function, DUF440; Region: DUF440; cl11472 388396002834 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 388396002835 substrate binding site [chemical binding]; other site 388396002836 ATP binding site [chemical binding]; other site 388396002837 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 388396002838 active site 388396002839 phosphate binding residues; other site 388396002840 catalytic residues [active] 388396002841 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 388396002842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396002843 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 388396002844 SelR domain; Region: SelR; cl00369 388396002845 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 388396002846 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 388396002847 Ion transport protein; Region: Ion_trans; pfam00520 388396002848 Ion channel; Region: Ion_trans_2; cl11596 388396002849 Double zinc ribbon; Region: DZR; pfam12773 388396002850 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 388396002851 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 388396002852 putative catalytic cysteine [active] 388396002853 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 388396002854 putative active site [active] 388396002855 metal binding site [ion binding]; metal-binding site 388396002856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396002857 NAD(P) binding site [chemical binding]; other site 388396002858 active site 388396002859 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 388396002860 superoxide dismutase; Provisional; Region: PRK10543 388396002861 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 388396002862 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 388396002863 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 388396002864 putative GSH binding site [chemical binding]; other site 388396002865 catalytic residues [active] 388396002866 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 388396002867 Response regulator receiver domain; Region: Response_reg; pfam00072 388396002868 active site 388396002869 phosphorylation site [posttranslational modification] 388396002870 intermolecular recognition site; other site 388396002871 dimerization interface [polypeptide binding]; other site 388396002872 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 388396002873 Predicted permease [General function prediction only]; Region: COG2056 388396002874 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; cl09110 388396002875 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 388396002876 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 388396002877 dimer interface [polypeptide binding]; other site 388396002878 putative active site [active] 388396002879 putative substrate binding site [chemical binding]; other site 388396002880 catalytic site [active] 388396002881 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 388396002882 ligand binding site [chemical binding]; other site 388396002883 Protein of unknown function (DUF2753); Region: DUF2753; pfam10952 388396002884 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 388396002885 dimer interface [polypeptide binding]; other site 388396002886 active site 388396002887 metal binding site [ion binding]; metal-binding site 388396002888 glutathione binding site [chemical binding]; other site 388396002889 endonuclease III; Provisional; Region: PRK10702 388396002890 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 388396002891 minor groove reading motif; other site 388396002892 helix-hairpin-helix signature motif; other site 388396002893 substrate binding pocket [chemical binding]; other site 388396002894 active site 388396002895 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 388396002896 FMN-binding domain; Region: FMN_bind; cl01081 388396002897 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 388396002898 C subunit; Region: rnfC; TIGR01945 388396002899 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 388396002900 SLBB domain; Region: SLBB; pfam10531 388396002901 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 alpha-; Region: HCP_like; cl14655 388396002902 ferredoxin; Provisional; Region: PRK08764 388396002903 Putative Fe-S cluster; Region: FeS; pfam04060 388396002904 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 388396002905 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 388396002906 excinuclease ABC subunit B; Provisional; Region: PRK05298 388396002907 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 388396002908 ATP binding site [chemical binding]; other site 388396002909 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 388396002910 nucleotide binding region [chemical binding]; other site 388396002911 ATP-binding site [chemical binding]; other site 388396002912 Ultra-violet resistance protein B; Region: UvrB; pfam12344 388396002913 UvrB/uvrC motif; Region: UVR; pfam02151 388396002914 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 388396002915 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 388396002916 active site 388396002917 phosphorylation site [posttranslational modification] 388396002918 intermolecular recognition site; other site 388396002919 dimerization interface [polypeptide binding]; other site 388396002920 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...; Region: AAA; cd00009 388396002921 Walker A motif; other site 388396002922 ATP binding site [chemical binding]; other site 388396002923 Walker B motif; other site 388396002924 arginine finger; other site 388396002925 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 388396002926 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 388396002927 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 388396002928 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 388396002929 phosphate binding site [ion binding]; other site 388396002930 putative substrate binding pocket [chemical binding]; other site 388396002931 dimer interface [polypeptide binding]; other site 388396002932 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 388396002933 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 388396002934 FeS/SAM binding site; other site 388396002935 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 388396002936 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...; Region: MoaC_PE; cd01420 388396002937 trimer interface [polypeptide binding]; other site 388396002938 dimer interface [polypeptide binding]; other site 388396002939 putative active site [active] 388396002940 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 388396002941 MoaE interaction surface [polypeptide binding]; other site 388396002942 MoeB interaction surface [polypeptide binding]; other site 388396002943 thiocarboxylated glycine; other site 388396002944 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 388396002945 MoaE homodimer interface [polypeptide binding]; other site 388396002946 MoaD interaction [polypeptide binding]; other site 388396002947 active site residues [active] 388396002948 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 388396002949 Protein of unknown function (DUF785); Region: DUF785; cl01682 388396002950 tRNA mo(5)U34 methyltransferase; Provisional; Region: PRK15068 388396002951 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; cl12011 388396002952 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 388396002953 S-adenosylmethionine binding site [chemical binding]; other site 388396002954 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 388396002955 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 388396002956 dimer interface [polypeptide binding]; other site 388396002957 anticodon binding site; other site 388396002958 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 the...; Region: AspRS_core; cd00777 388396002959 homodimer interface [polypeptide binding]; other site 388396002960 motif 1; other site 388396002961 active site 388396002962 motif 2; other site 388396002963 GAD domain; Region: GAD; pfam02938 388396002964 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 388396002965 active site 388396002966 motif 3; other site 388396002967 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 includes...; Region: RuvC_resolvase; cd00529 388396002968 active site 388396002969 putative DNA-binding cleft [nucleotide binding]; other site 388396002970 dimer interface [polypeptide binding]; other site 388396002971 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 388396002972 RuvA N terminal domain; Region: RuvA_N; pfam01330 388396002973 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 388396002974 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 388396002975 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...; Region: AAA; cd00009 388396002976 Walker A motif; other site 388396002977 ATP binding site [chemical binding]; other site 388396002978 Walker B motif; other site 388396002979 arginine finger; other site 388396002980 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 388396002981 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 388396002982 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 388396002983 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 388396002984 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 388396002985 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...; Region: 4HBT; cd00586 388396002986 active site 388396002987 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 388396002988 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 388396002989 TolA protein; Region: tolA_full; TIGR02794 388396002990 TolA C-terminal; Region: TolA; pfam06519 388396002991 translocation protein TolB; Provisional; Region: tolB; PRK04792 388396002992 TolB amino-terminal domain; Region: TolB_N; pfam04052 388396002993 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 388396002994 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 388396002995 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 388396002996 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 388396002997 ligand binding site [chemical binding]; other site 388396002998 tol-pal system protein YbgF; Provisional; Region: PRK10803 388396002999 Quinolinate synthetase A protein; Region: NadA; cl00420 388396003000 Protein of unknown function (DUF785); Region: DUF785; cl01682 388396003001 Flavin-binding monooxygenase-like; Region: FMO-like; pfam00743 388396003002 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 388396003003 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 388396003004 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...; Region: metallo-dependent_hydrolases; cl00281 388396003005 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 388396003006 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 388396003007 active site 388396003008 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 388396003009 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 388396003010 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...; Region: metallo-dependent_hydrolases; cl00281 388396003011 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 388396003012 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 388396003013 active site 388396003014 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 388396003015 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 388396003016 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 388396003017 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 388396003018 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 388396003019 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 388396003020 Domain of unknown function DUF20; Region: UPF0118; cl00465 388396003021 Ion channel; Region: Ion_trans_2; cl11596 388396003022 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 388396003023 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 388396003024 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 388396003025 Protein of unknown function, DUF393; Region: DUF393; cl01136 388396003026 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 388396003027 NADP binding site [chemical binding]; other site 388396003028 homodimer interface [polypeptide binding]; other site 388396003029 active site 388396003030 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 388396003031 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 388396003032 G1 box; other site 388396003033 GTP/Mg2+ binding site [chemical binding]; other site 388396003034 Switch I region; other site 388396003035 G2 box; other site 388396003036 G3 box; other site 388396003037 Switch II region; other site 388396003038 G4 box; other site 388396003039 G5 box; other site 388396003040 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 388396003041 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 388396003042 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...; Region: Sigma70_r4; cd06171 388396003043 DNA binding residues [nucleotide binding] 388396003044 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl01099 388396003045 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 388396003046 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 388396003047 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396003048 Walker A/P-loop; other site 388396003049 ATP binding site [chemical binding]; other site 388396003050 Q-loop/lid; other site 388396003051 ABC transporter signature motif; other site 388396003052 Walker B; other site 388396003053 D-loop; other site 388396003054 H-loop/switch region; other site 388396003055 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 388396003056 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 388396003057 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide...; Region: ABCC_Glucan_exporter_like; cd03254 388396003058 Walker A/P-loop; other site 388396003059 ATP binding site [chemical binding]; other site 388396003060 Q-loop/lid; other site 388396003061 ABC transporter signature motif; other site 388396003062 Walker B; other site 388396003063 D-loop; other site 388396003064 H-loop/switch region; other site 388396003065 Eukaryotic Glutathione Synthetase (eu-GS); catalyses the production of glutathione from gamma-glutamylcysteine and glycine in an ATP-dependent manner. Belongs to the ATP-grasp superfamily; Region: eu-GS; cl00170 388396003066 dimerization unit; other site 388396003067 glutathione (GSH) binding pocket [chemical binding]; other site 388396003068 active site residues [active] 388396003069 ATP binding pocket [chemical binding]; other site 388396003070 magnesium binding site [ion binding]; other site 388396003071 glycine rich loop; other site 388396003072 alanine rich loop; other site 388396003073 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 388396003074 Coenzyme A binding pocket [chemical binding]; other site 388396003075 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 388396003076 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 388396003077 NADP binding site [chemical binding]; other site 388396003078 dimer interface [polypeptide binding]; other site 388396003079 putative MFS family transporter protein; Provisional; Region: PRK03633 388396003080 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 388396003081 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 388396003082 Domain of unknown function (DUF333); Region: DUF333; pfam03891 388396003083 Domain of unknown function (DUF333); Region: DUF333; pfam03891 388396003084 Cystatin-like domain; Cystatins are a family of cysteine protease inhibitors that occur mainly as single domain proteins. However some extracellular proteins such as kininogen, His-rich glycoprotein and fetuin also contain these domains; Region: CY; cl09238 388396003085 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 388396003086 Cache domain; Region: Cache_2; pfam08269 388396003087 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 388396003088 Cache domain; Region: Cache_2; pfam08269 388396003089 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396003090 metal binding site [ion binding]; metal-binding site 388396003091 active site 388396003092 I-site; other site 388396003093 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 388396003094 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 388396003095 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 388396003096 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 388396003097 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is...; Region: GH18_chitinase; cd06548 388396003098 active site 388396003099 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 388396003100 Chitinase C; Region: ChiC; pfam06483 388396003101 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 388396003102 chitin/cellulose binding site [chemical binding]; other site 388396003103 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396003104 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396003105 Pertussis toxin, subunit 1; Region: Pertussis_S1; cl03779 388396003106 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 388396003107 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 388396003108 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; cl14056 388396003109 Helix-turn-helix domain; Region: HTH_18; pfam12833 388396003110 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 388396003111 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cl09835 388396003112 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cl09832 388396003113 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cl12127 388396003114 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 388396003115 non-specific DNA binding site [nucleotide binding]; other site 388396003116 salt bridge; other site 388396003117 sequence-specific DNA binding site [nucleotide binding]; other site 388396003118 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 388396003119 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 388396003120 ATP binding site [chemical binding]; other site 388396003121 putative Mg++ binding site [ion binding]; other site 388396003122 TIR domain; Region: TIR; cl02060 388396003123 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 388396003124 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 388396003125 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396003126 Walker A/P-loop; other site 388396003127 ATP binding site [chemical binding]; other site 388396003128 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 388396003129 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 388396003130 putative active site [active] 388396003131 putative metal-binding site [ion binding]; other site 388396003132 UvrD/REP helicase; Region: UvrD-helicase; cl14126 388396003133 Bacterial TniB protein; Region: TniB; pfam05621 388396003134 Integrase core domain; Region: rve; cl01316 388396003135 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 388396003136 Protein of unknown function, DUF481; Region: DUF481; cl01213 388396003137 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 388396003138 PAS fold; Region: PAS_3; pfam08447 388396003139 putative active site [active] 388396003140 heme pocket [chemical binding]; other site 388396003141 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396003142 metal binding site [ion binding]; metal-binding site 388396003143 active site 388396003144 I-site; other site 388396003145 Catalytic domain of Protein Kinases; Region: PKc; cd00180 388396003146 active site 388396003147 ATP binding site [chemical binding]; other site 388396003148 substrate binding site [chemical binding]; other site 388396003149 activation loop (A-loop); other site 388396003150 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 388396003151 Protein phosphatase 2C; Region: PP2C; pfam00481 388396003152 Active site [active] 388396003153 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 388396003154 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 388396003155 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 388396003156 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 388396003157 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 388396003158 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 388396003159 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 388396003160 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 388396003161 phosphopeptide binding site; other site 388396003162 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 388396003163 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...; Region: AAA; cd00009 388396003164 Walker A motif; other site 388396003165 ATP binding site [chemical binding]; other site 388396003166 Walker B motif; other site 388396003167 arginine finger; other site 388396003168 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 388396003169 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 388396003170 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...; Region: AAA; cd00009 388396003171 Walker A motif; other site 388396003172 ATP binding site [chemical binding]; other site 388396003173 Walker B motif; other site 388396003174 arginine finger; other site 388396003175 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...; Region: AAA; cd00009 388396003176 Walker A motif; other site 388396003177 ATP binding site [chemical binding]; other site 388396003178 Walker B motif; other site 388396003179 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 388396003180 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 388396003181 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 388396003182 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 388396003183 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 388396003184 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 388396003185 Protein of unknown function (DUF877); Region: DUF877; pfam05943 388396003186 Protein of unknown function (DUF770); Region: DUF770; cl01402 388396003187 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 388396003188 Protein of unknown function (DUF2496); Region: DUF2496; cl11670 388396003189 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 388396003190 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 388396003191 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 388396003192 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 388396003193 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl09250 388396003194 DEAD_2; Region: DEAD_2; cl14887 388396003195 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl09250 388396003196 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...; Region: OM_channels; cl00284 388396003197 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...; Region: OM_channels; cl00284 388396003198 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 388396003199 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 388396003200 HisG, C-terminal domain; Region: HisG_C; cl06867 388396003201 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 388396003202 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 oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 388396003203 NAD binding site [chemical binding]; other site 388396003204 dimerization interface [polypeptide binding]; other site 388396003205 product binding site; other site 388396003206 substrate binding site [chemical binding]; other site 388396003207 zinc binding site [ion binding]; other site 388396003208 catalytic residues [active] 388396003209 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 388396003210 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 388396003211 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396003212 homodimer interface [polypeptide binding]; other site 388396003213 catalytic residue [active] 388396003214 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 388396003215 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 388396003216 active site 388396003217 motif I; other site 388396003218 motif II; other site 388396003219 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 388396003220 putative active site pocket [active] 388396003221 4-fold oligomerization interface [polypeptide binding]; other site 388396003222 metal binding residues [ion binding]; metal-binding site 388396003223 3-fold/trimer interface [polypeptide binding]; other site 388396003224 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 388396003225 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 388396003226 putative active site [active] 388396003227 oxyanion strand; other site 388396003228 catalytic triad [active] 388396003229 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 388396003230 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 388396003231 catalytic residues [active] 388396003232 Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]; Region: HisF; COG0107 388396003233 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)-formimino-5-; Region: HisF; cd04731 388396003234 substrate binding site [chemical binding]; other site 388396003235 glutamase interaction surface [polypeptide binding]; other site 388396003236 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 388396003237 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 388396003238 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 388396003239 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 388396003240 active site 388396003241 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; cl12011 388396003242 YCII-related domain; Region: YCII; cl00999 388396003243 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...; Region: BFIT_BACH; cd03442 388396003244 Intracellular septation protein A; Region: IspA; cl01098 388396003245 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 388396003246 tryptophan synthase; Region: PLN02591 388396003247 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...; Region: Tryptophan_synthase_alpha; cd04724 388396003248 substrate binding site [chemical binding]; other site 388396003249 active site 388396003250 catalytic residues [active] 388396003251 heterodimer interface [polypeptide binding]; other site 388396003252 tryptophan synthase, beta chain; Region: PLN02618 388396003253 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 388396003254 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396003255 catalytic residue [active] 388396003256 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 388396003257 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 388396003258 active site 388396003259 ribulose/triose binding site [chemical binding]; other site 388396003260 phosphate binding site [ion binding]; other site 388396003261 substrate (anthranilate) binding pocket [chemical binding]; other site 388396003262 product (indole) binding pocket [chemical binding]; other site 388396003263 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 monomeric...; Region: PRAI; cd00405 388396003264 active site 388396003265 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 388396003266 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 388396003267 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 388396003268 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 388396003269 Glutamine amidotransferase class-I; Region: GATase; pfam00117 388396003270 glutamine binding [chemical binding]; other site 388396003271 catalytic triad [active] 388396003272 anthranilate synthase component I; Provisional; Region: PRK13564 388396003273 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 388396003274 chorismate binding enzyme; Region: Chorismate_bind; cl10555 388396003275 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 388396003276 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 388396003277 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 388396003278 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 388396003279 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 388396003280 ATP binding site [chemical binding]; other site 388396003281 Mg2+ binding site [ion binding]; other site 388396003282 G-X-G motif; other site 388396003283 Response regulator receiver domain; Region: Response_reg; pfam00072 388396003284 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 388396003285 active site 388396003286 phosphorylation site [posttranslational modification] 388396003287 intermolecular recognition site; other site 388396003288 dimerization interface [polypeptide binding]; other site 388396003289 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 388396003290 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 388396003291 RNA binding surface [nucleotide binding]; other site 388396003292 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 388396003293 probable active site [active] 388396003294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396003295 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 388396003296 NAD(P) binding site [chemical binding]; other site 388396003297 active site 388396003298 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 388396003299 putative inner membrane peptidase; Provisional; Region: PRK11778 388396003300 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 388396003301 tandem repeat interface [polypeptide binding]; other site 388396003302 oligomer interface [polypeptide binding]; other site 388396003303 active site residues [active] 388396003304 Protein of unknown function (DUF2498); Region: DUF2498; cl11671 388396003305 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 388396003306 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...; Region: TOPRIM_TopoIA_TopoI; cd03363 388396003307 active site 388396003308 interdomain interaction site; other site 388396003309 putative metal-binding site [ion binding]; other site 388396003310 nucleotide binding site [chemical binding]; other site 388396003311 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...; Region: TOP1Ac; cd00186 388396003312 domain I; other site 388396003313 DNA binding groove [nucleotide binding] 388396003314 phosphate binding site [ion binding]; other site 388396003315 domain II; other site 388396003316 domain III; other site 388396003317 nucleotide binding site [chemical binding]; other site 388396003318 catalytic site [active] 388396003319 domain IV; other site 388396003320 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 388396003321 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 388396003322 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 388396003323 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 388396003324 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 388396003325 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 388396003326 transmembrane helices; other site 388396003327 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 388396003328 ligand binding site [chemical binding]; other site 388396003329 flexible hinge region; other site 388396003330 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 388396003331 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 388396003332 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 388396003333 ATP binding site [chemical binding]; other site 388396003334 Mg2+ binding site [ion binding]; other site 388396003335 G-X-G motif; other site 388396003336 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 388396003337 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; cl09944 388396003338 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 388396003339 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396003340 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 388396003341 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 deoxyribose-1-...; Region: PGM2; cd05799 388396003342 active site 388396003343 substrate binding site [chemical binding]; other site 388396003344 metal binding site [ion binding]; metal-binding site 388396003345 LysE type translocator; Region: LysE; cl00565 388396003346 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 388396003347 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 388396003348 N-acetylglucosamine-binding protein A; Reviewed; Region: PRK13211 388396003349 Glycoside hydrolase family 19 chitinase domain. Chitinases are enzymes that catalyze the hydrolysis of the beta-1,4-N-acetyl-D-glucosamine linkages in chitin polymers. Family 19 chitinases are found primarily in plants (classes I, III, and IV), but...; Region: chitinase_glyco_hydro_19; cd00325 388396003350 putative sugar binding site [chemical binding]; other site 388396003351 catalytic residues [active] 388396003352 peptidase T; Region: peptidase-T; TIGR01882 388396003353 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 388396003354 metal binding site [ion binding]; metal-binding site 388396003355 dimer interface [polypeptide binding]; other site 388396003356 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 388396003357 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; cl09110 388396003358 adenylosuccinate synthetase; Provisional; Region: PRK01117 388396003359 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 r-...; Region: AdSS; cd03108 388396003360 GDP-binding site [chemical binding]; other site 388396003361 ACT binding site; other site 388396003362 IMP binding site; other site 388396003363 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396003364 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396003365 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 388396003366 dimerization interface [polypeptide binding]; other site 388396003367 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 388396003368 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 388396003369 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396003370 catalytic residue [active] 388396003371 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 388396003372 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 388396003373 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; cl09110 388396003374 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 388396003375 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396003376 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396003377 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 388396003378 putative effector binding pocket; other site 388396003379 dimerization interface [polypeptide binding]; other site 388396003380 DoxX; Region: DoxX; cl00976 388396003381 Pirin-related protein [General function prediction only]; Region: COG1741 388396003382 Cupin domain; Region: Cupin_2; cl09118 388396003383 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 388396003384 Uncharacterized conserved protein [Function unknown]; Region: COG5361 388396003385 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 388396003386 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 388396003387 Uncharacterized conserved protein [Function unknown]; Region: COG5361 388396003388 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 388396003389 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 388396003390 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396003391 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396003392 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 388396003393 dimerization interface [polypeptide binding]; other site 388396003394 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396003395 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396003396 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 388396003397 dimerization interface [polypeptide binding]; other site 388396003398 Putative mono-oxygenase ydhR; Region: ydhR; cl07420 388396003399 Protein of unknown function (DUF2860); Region: DUF2860; pfam11059 388396003400 Cupin domain; Region: Cupin_2; cl09118 388396003401 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 388396003402 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 388396003403 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 388396003404 LysE type translocator; Region: LysE; cl00565 388396003405 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 388396003406 Moco binding site; other site 388396003407 metal coordination site [ion binding]; other site 388396003408 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 388396003409 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 388396003410 Prephenate dehydratase; Region: PDT; pfam00800 388396003411 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 388396003412 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 388396003413 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 388396003414 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 388396003415 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...; Region: GST_N_Ure2p_like; cd03048 388396003416 C-terminal domain interface [polypeptide binding]; other site 388396003417 GSH binding site (G-site) [chemical binding]; other site 388396003418 dimer interface [polypeptide binding]; other site 388396003419 GST_C 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...; Region: GST_C_Ure2p_like; cd03178 388396003420 dimer interface [polypeptide binding]; other site 388396003421 N-terminal domain interface [polypeptide binding]; other site 388396003422 putative substrate binding pocket (H-site) [chemical binding]; other site 388396003423 putative S-transferase; Provisional; Region: PRK11752 388396003424 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...; Region: GST_N_Ure2p_like; cd03048 388396003425 C-terminal domain interface [polypeptide binding]; other site 388396003426 GSH binding site (G-site) [chemical binding]; other site 388396003427 dimer interface [polypeptide binding]; other site 388396003428 GST_C 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...; Region: GST_C_Ure2p_like; cd03178 388396003429 dimer interface [polypeptide binding]; other site 388396003430 N-terminal domain interface [polypeptide binding]; other site 388396003431 putative substrate binding pocket (H-site) [chemical binding]; other site 388396003432 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 388396003433 Surface antigen; Region: Surface_Ag_2; cl01155 388396003434 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...; Region: trans_reg_C; cd00383 388396003435 DNA binding site [nucleotide binding] 388396003436 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 388396003437 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 388396003438 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; cl09110 388396003439 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396003440 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396003441 Nitrate and nitrite sensing; Region: NIT; pfam08376 388396003442 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396003443 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396003444 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...; Region: PBPb; cd00134 388396003445 substrate binding pocket [chemical binding]; other site 388396003446 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...; Region: PBPb; cd00134 388396003447 membrane-bound complex binding site; other site 388396003448 hinge residues; other site 388396003449 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 388396003450 S-adenosylmethionine binding site [chemical binding]; other site 388396003451 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396003452 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396003453 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 388396003454 putative effector binding pocket; other site 388396003455 dimerization interface [polypeptide binding]; other site 388396003456 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 388396003457 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 388396003458 Nucleoside recognition; Region: Gate; cl00486 388396003459 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 388396003460 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 388396003461 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 388396003462 substrate binding site [chemical binding]; other site 388396003463 Beta-lactamase; Region: Beta-lactamase; cl01009 388396003464 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)...; Region: Trp-synth-beta_II; cl00342 388396003465 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...; Region: HNHc; cl00083 388396003466 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 388396003467 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 388396003468 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 388396003469 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 388396003470 FtsX-like permease family; Region: FtsX; pfam02687 388396003471 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 388396003472 FtsX-like permease family; Region: FtsX; pfam02687 388396003473 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 388396003474 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 388396003475 Walker A/P-loop; other site 388396003476 ATP binding site [chemical binding]; other site 388396003477 Q-loop/lid; other site 388396003478 ABC transporter signature motif; other site 388396003479 Walker B; other site 388396003480 D-loop; other site 388396003481 H-loop/switch region; other site 388396003482 chaperone protein DnaJ; Provisional; Region: PRK14299 388396003483 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...; Region: DnaJ; cd06257 388396003484 HSP70 interaction site [polypeptide binding]; other site 388396003485 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 388396003486 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 388396003487 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 388396003488 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396003489 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396003490 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 388396003491 dimerization interface [polypeptide binding]; other site 388396003492 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 388396003493 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; cl11391 388396003494 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 388396003495 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...; Region: SIS_RpiR; cd05013 388396003496 putative active site [active] 388396003497 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 388396003498 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 388396003499 putative active site [active] 388396003500 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 388396003501 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...; Region: PTS_IIB_glc; cd00212 388396003502 active site turn [active] 388396003503 phosphorylation site [posttranslational modification] 388396003504 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 388396003505 YaeQ protein; Region: YaeQ; cl01913 388396003506 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 388396003507 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 388396003508 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 388396003509 Coenzyme A binding pocket [chemical binding]; other site 388396003510 BCCT family transporter; Region: BCCT; cl00569 388396003511 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 388396003512 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 388396003513 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 388396003514 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; cl11420 388396003515 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; cl09944 388396003516 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 388396003517 active site 388396003518 phosphorylation site [posttranslational modification] 388396003519 intermolecular recognition site; other site 388396003520 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 388396003521 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 388396003522 CobD/Cbib protein; Region: CobD_Cbib; cl00561 388396003523 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 388396003524 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 388396003525 putative metal binding site [ion binding]; other site 388396003526 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 388396003527 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396003528 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396003529 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396003530 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 388396003531 nucleotide binding site/active site [active] 388396003532 HIT family signature motif; other site 388396003533 catalytic residue [active] 388396003534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 388396003535 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 388396003536 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 388396003537 putative dimer interface [polypeptide binding]; other site 388396003538 Curli production assembly/transport component CsgG; Region: CsgG; cl00639 388396003539 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 388396003540 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396003541 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396003542 Protein with unknown function (DUF469); Region: DUF469; cl01237 388396003543 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 388396003544 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; cl12011 388396003545 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; cd05120 388396003546 active site 388396003547 substrate binding site [chemical binding]; other site 388396003548 ATP binding site [chemical binding]; other site 388396003549 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 388396003550 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 388396003551 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396003552 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 388396003553 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 388396003554 ATP binding site [chemical binding]; other site 388396003555 Mg++ binding site [ion binding]; other site 388396003556 motif III; other site 388396003557 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 388396003558 nucleotide binding region [chemical binding]; other site 388396003559 ATP-binding site [chemical binding]; other site 388396003560 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 388396003561 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 388396003562 Domain of unknown function (DUF305); Region: DUF305; pfam03713 388396003563 Carbon starvation protein CstA; Region: CstA; cl00856 388396003564 LysE type translocator; Region: LysE; cl00565 388396003565 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 388396003566 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396003567 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 388396003568 dimerization interface [polypeptide binding]; other site 388396003569 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 388396003570 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 388396003571 active site 388396003572 phosphorylation site [posttranslational modification] 388396003573 intermolecular recognition site; other site 388396003574 dimerization interface [polypeptide binding]; other site 388396003575 LytTr DNA-binding domain; Region: LytTR; cl04498 388396003576 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 388396003577 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 388396003578 Histidine kinase; Region: His_kinase; pfam06580 388396003579 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 388396003580 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 388396003581 Peptidase family M48; Region: Peptidase_M48; cl12018 388396003582 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 388396003583 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 388396003584 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 388396003585 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 388396003586 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 388396003587 active site 388396003588 putative substrate binding pocket [chemical binding]; other site 388396003589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 388396003590 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 388396003591 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 388396003592 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 388396003593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 388396003594 Peptidase M15; Region: Peptidase_M15_3; cl01194 388396003595 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 388396003596 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 (...; Region: EcAsnRS_like_N; cd04318 388396003597 putative dimer interface [polypeptide binding]; other site 388396003598 putative anticodon binding site; other site 388396003599 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...; Region: AsxRS_core; cd00776 388396003600 homodimer interface [polypeptide binding]; other site 388396003601 motif 1; other site 388396003602 motif 2; other site 388396003603 active site 388396003604 motif 3; other site 388396003605 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 388396003606 active site 388396003607 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 388396003608 putative metal binding site [ion binding]; other site 388396003609 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 388396003610 putative catalytic site [active] 388396003611 putative phosphate binding site [ion binding]; other site 388396003612 putative metal binding site [ion binding]; other site 388396003613 exonuclease subunit SbcD; Provisional; Region: PRK10966 388396003614 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 388396003615 active site 388396003616 metal binding site [ion binding]; metal-binding site 388396003617 DNA binding site [nucleotide binding] 388396003618 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 388396003619 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396003620 exonuclease SbcC; Region: sbcc; TIGR00618 388396003621 Walker A/P-loop; other site 388396003622 ATP binding site [chemical binding]; other site 388396003623 Q-loop/lid; other site 388396003624 exonuclease subunit SbcC; Provisional; Region: PRK10246 388396003625 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396003626 ABC transporter signature motif; other site 388396003627 Walker B; other site 388396003628 D-loop; other site 388396003629 H-loop/switch region; other site 388396003630 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...; Region: BFIT_BACH; cd03442 388396003631 putative efflux protein, MATE family; Region: matE; TIGR00797 388396003632 MatE; Region: MatE; pfam01554 388396003633 MatE; Region: MatE; pfam01554 388396003634 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 388396003635 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 388396003636 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 388396003637 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 388396003638 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 388396003639 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 388396003640 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 388396003641 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 388396003642 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 388396003643 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 388396003644 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 388396003645 putative active site [active] 388396003646 putative CoA binding site [chemical binding]; other site 388396003647 nudix motif; other site 388396003648 metal binding site [ion binding]; metal-binding site 388396003649 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 388396003650 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 388396003651 chorismate binding enzyme; Region: Chorismate_bind; cl10555 388396003652 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 388396003653 Fumarase C-terminus; Region: Fumerase_C; cl00795 388396003654 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 388396003655 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 388396003656 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 388396003657 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 388396003658 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 388396003659 cystathionine beta-lyase; Provisional; Region: PRK09028 388396003660 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 388396003661 homodimer interface [polypeptide binding]; other site 388396003662 substrate-cofactor binding pocket; other site 388396003663 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396003664 catalytic residue [active] 388396003665 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 388396003666 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 388396003667 dimer interface [polypeptide binding]; other site 388396003668 active site 388396003669 metal binding site [ion binding]; metal-binding site 388396003670 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 388396003671 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 388396003672 dimerization interface [polypeptide binding]; other site 388396003673 active site 388396003674 Imelysin; Region: Peptidase_M75; cl09159 388396003675 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 388396003676 Imelysin; Region: Peptidase_M75; cl09159 388396003677 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 388396003678 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 388396003679 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 388396003680 hypothetical protein; Provisional; Region: PRK03673 388396003681 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 388396003682 putative MPT binding site; other site 388396003683 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 388396003684 catalytic loop [active] 388396003685 iron binding site [ion binding]; other site 388396003686 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396003687 metal binding site [ion binding]; metal-binding site 388396003688 active site 388396003689 I-site; other site 388396003690 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 388396003691 dimer interface [polypeptide binding]; other site 388396003692 putative radical transfer pathway; other site 388396003693 diiron center [ion binding]; other site 388396003694 tyrosyl radical; other site 388396003695 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 388396003696 ATP cone domain; Region: ATP-cone; pfam03477 388396003697 Class I ribonucleotide reductase; Region: RNR_I; cd01679 388396003698 active site 388396003699 dimer interface [polypeptide binding]; other site 388396003700 catalytic residues [active] 388396003701 effector binding site; other site 388396003702 R2 peptide binding site; other site 388396003703 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 388396003704 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 388396003705 S-adenosylmethionine binding site [chemical binding]; other site 388396003706 DNA gyrase subunit A; Validated; Region: PRK05560 388396003707 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 in...; Region: TOP4c; cd00187 388396003708 CAP-like domain; other site 388396003709 Active site [active] 388396003710 primary dimer interface [polypeptide binding]; other site 388396003711 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 388396003712 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 388396003713 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 388396003714 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 388396003715 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 388396003716 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 388396003717 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 388396003718 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 388396003719 active site 388396003720 putative chaperone; Provisional; Region: PRK11678 388396003721 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...; Region: ASCH_yqfb_like; cd06552 388396003722 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 388396003723 active site 388396003724 putative substrate binding region [chemical binding]; other site 388396003725 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 388396003726 SpoOM protein; Region: Spo0M; pfam07070 388396003727 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 388396003728 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 388396003729 dimer interface [polypeptide binding]; other site 388396003730 active site 388396003731 metal binding site [ion binding]; metal-binding site 388396003732 glutathione binding site [chemical binding]; other site 388396003733 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 388396003734 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 388396003735 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...; Region: TGS_ThrRS_N; cd01667 388396003736 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 388396003737 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 388396003738 active site 388396003739 dimer interface [polypeptide binding]; other site 388396003740 motif 1; other site 388396003741 motif 2; other site 388396003742 motif 3; other site 388396003743 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 388396003744 anticodon binding site; other site 388396003745 translation initiation factor IF-3; Region: infC; TIGR00168 388396003746 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 388396003747 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 388396003748 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 388396003749 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 388396003750 23S rRNA binding site [nucleotide binding]; other site 388396003751 L21 binding site [polypeptide binding]; other site 388396003752 L13 binding site [polypeptide binding]; other site 388396003753 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 388396003754 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 388396003755 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 388396003756 FAD binding pocket [chemical binding]; other site 388396003757 FAD binding motif [chemical binding]; other site 388396003758 phosphate binding motif [ion binding]; other site 388396003759 beta-alpha-beta structure motif; other site 388396003760 NAD binding pocket [chemical binding]; other site 388396003761 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 388396003762 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 388396003763 Walker A/P-loop; other site 388396003764 ATP binding site [chemical binding]; other site 388396003765 Q-loop/lid; other site 388396003766 ABC transporter signature motif; other site 388396003767 Walker B; other site 388396003768 D-loop; other site 388396003769 H-loop/switch region; other site 388396003770 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...; Region: TM_ABC_iron-siderophores_like; cd06550 388396003771 ABC-ATPase subunit interface; other site 388396003772 dimer interface [polypeptide binding]; other site 388396003773 putative PBP binding regions; other site 388396003774 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 388396003775 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 388396003776 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 388396003777 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 388396003778 Gram-negative bacterial tonB protein; Region: TonB; cl10048 388396003779 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 388396003780 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 388396003781 FeS/SAM binding site; other site 388396003782 HemN C-terminal region; Region: HemN_C; pfam06969 388396003783 ChuX-like family; Region: DUF1008; cl01509 388396003784 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 388396003785 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 388396003786 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 388396003787 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 388396003788 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 388396003789 N-terminal plug; other site 388396003790 ligand-binding site [chemical binding]; other site 388396003791 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 388396003792 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 388396003793 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 388396003794 dimer interface [polypeptide binding]; other site 388396003795 motif 1; other site 388396003796 active site 388396003797 motif 2; other site 388396003798 motif 3; other site 388396003799 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 388396003800 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 388396003801 putative tRNA-binding site [nucleotide binding]; other site 388396003802 B3/4 domain; Region: B3_4; cl11458 388396003803 tRNA synthetase B5 domain; Region: B5; cl08394 388396003804 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 388396003805 dimer interface [polypeptide binding]; other site 388396003806 motif 1; other site 388396003807 motif 3; other site 388396003808 motif 2; other site 388396003809 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 388396003810 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 higher-...; Region: HU_IHF; cd00591 388396003811 IHF dimer interface [polypeptide binding]; other site 388396003812 IHF - DNA interface [nucleotide binding]; other site 388396003813 Peptidase M14 Succinylglutamate desuccinylase (ASTE, also known as N-succinyl-L-glutamate amidohydrolase, N2-succinylglutamate desuccinylase, and SGDS; EC 3.5.1.96) belongs to the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily...; Region: M14_ASTE; cd03855 388396003814 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 388396003815 putative active site [active] 388396003816 Zn-binding site [ion binding]; other site 388396003817 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 388396003818 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 388396003819 active site 388396003820 Zn binding site [ion binding]; other site 388396003821 Protein of unknown function (DUF520); Region: DUF520; cl00723 388396003822 NeuB family; Region: NeuB; cl00496 388396003823 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 388396003824 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; cl09155 388396003825 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 388396003826 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 388396003827 Cache domain; Region: Cache_1; pfam02743 388396003828 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396003829 metal binding site [ion binding]; metal-binding site 388396003830 active site 388396003831 I-site; other site 388396003832 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 388396003833 putative peptidoglycan binding site; other site 388396003834 aspartate aminotransferase; Provisional; Region: PRK07681 388396003835 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 388396003836 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396003837 homodimer interface [polypeptide binding]; other site 388396003838 catalytic residue [active] 388396003839 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 388396003840 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; cl09110 388396003841 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 388396003842 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 388396003843 DNA binding site [nucleotide binding] 388396003844 domain linker motif; other site 388396003845 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 388396003846 ligand binding site [chemical binding]; other site 388396003847 dimerization interface (closed form) [polypeptide binding]; other site 388396003848 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 388396003849 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...; Region: BFIT_BACH; cd03442 388396003850 Protein of unknown function, DUF417; Region: DUF417; cl01162 388396003851 putative transcriptional regulator; Provisional; Region: PRK11640 388396003852 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 388396003853 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 388396003854 dimer interface [polypeptide binding]; other site 388396003855 metal binding site [ion binding]; metal-binding site 388396003856 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 388396003857 GSH binding site [chemical binding]; other site 388396003858 catalytic residues [active] 388396003859 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 388396003860 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 388396003861 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 388396003862 active site 388396003863 putative substrate binding pocket [chemical binding]; other site 388396003864 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 388396003865 MatE; Region: MatE; pfam01554 388396003866 MatE; Region: MatE; pfam01554 388396003867 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 388396003868 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 388396003869 active site 388396003870 DNA binding site [nucleotide binding] 388396003871 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 (...; Region: S24_LexA-like; cd06529 388396003872 Catalytic site [active] 388396003873 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...; Region: PBPb; cd00134 388396003874 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 388396003875 substrate binding pocket [chemical binding]; other site 388396003876 membrane-bound complex binding site; other site 388396003877 hinge residues; other site 388396003878 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 388396003879 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 388396003880 elongation factor P; Provisional; Region: PRK04542 388396003881 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 388396003882 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 388396003883 RNA binding site [nucleotide binding]; other site 388396003884 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 388396003885 RNA binding site [nucleotide binding]; other site 388396003886 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 388396003887 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 388396003888 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; cl12011 388396003889 Uncharacterized conserved protein [Function unknown]; Region: COG3270 388396003890 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 388396003891 mce related protein; Region: MCE; cl03606 388396003892 mce related protein; Region: MCE; cl03606 388396003893 mce related protein; Region: MCE; cl03606 388396003894 mce related protein; Region: MCE; cl03606 388396003895 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 388396003896 mce related protein; Region: MCE; cl03606 388396003897 mce related protein; Region: MCE; cl03606 388396003898 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 388396003899 Paraquat-inducible protein A; Region: PqiA; pfam04403 388396003900 Paraquat-inducible protein A; Region: PqiA; pfam04403 388396003901 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 388396003902 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 388396003903 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396003904 Walker A/P-loop; other site 388396003905 ATP binding site [chemical binding]; other site 388396003906 Q-loop/lid; other site 388396003907 ABC transporter signature motif; other site 388396003908 Walker B; other site 388396003909 D-loop; other site 388396003910 H-loop/switch region; other site 388396003911 GAF domain; Region: GAF; cl00853 388396003912 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl00174 388396003913 carboxy-terminal protease; Provisional; Region: PRK11186 388396003914 B melanoma antigen family; Region: BAGE; pfam08180 388396003915 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 388396003916 protein binding site [polypeptide binding]; other site 388396003917 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 388396003918 Catalytic dyad [active] 388396003919 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 388396003920 aminopeptidase N; Provisional; Region: pepN; PRK14015 388396003921 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 388396003922 active site 388396003923 Zn binding site [ion binding]; other site 388396003924 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 388396003925 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 388396003926 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...; Region: DHOD_2_like; cd04738 388396003927 quinone interaction residues [chemical binding]; other site 388396003928 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 388396003929 active site 388396003930 catalytic residues [active] 388396003931 FMN binding site [chemical binding]; other site 388396003932 substrate binding site [chemical binding]; other site 388396003933 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 388396003934 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 388396003935 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; cl12011 388396003936 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 388396003937 S-adenosylmethionine binding site [chemical binding]; other site 388396003938 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 388396003939 ABC transporter ATPase component; Reviewed; Region: PRK11147 388396003940 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 388396003941 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396003942 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 388396003943 ABC transporter; Region: ABC_tran_2; pfam12848 388396003944 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 388396003945 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 388396003946 Ribosome modulation factor; Region: RMF; cl01207 388396003947 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 388396003948 active site 1 [active] 388396003949 dimer interface [polypeptide binding]; other site 388396003950 active site 2 [active] 388396003951 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 388396003952 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 388396003953 Organiser of macrodomain of Terminus of chromosome; Region: MatP; cl11476 388396003954 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 388396003955 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 trans-...; Region: HisKA; cd00082 388396003956 dimer interface [polypeptide binding]; other site 388396003957 phosphorylation site [posttranslational modification] 388396003958 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 388396003959 ATP binding site [chemical binding]; other site 388396003960 Mg2+ binding site [ion binding]; other site 388396003961 G-X-G motif; other site 388396003962 Response regulator receiver domain; Region: Response_reg; pfam00072 388396003963 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 388396003964 active site 388396003965 phosphorylation site [posttranslational modification] 388396003966 intermolecular recognition site; other site 388396003967 dimerization interface [polypeptide binding]; other site 388396003968 FIST N domain; Region: FIST; pfam08495 388396003969 FIST C domain; Region: FIST_C; pfam10442 388396003970 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...; Region: cbb3_Oxidase_I; cd01661 388396003971 Low-spin heme binding site [chemical binding]; other site 388396003972 Putative water exit pathway; other site 388396003973 Binuclear center (active site) [active] 388396003974 Putative proton exit pathway; other site 388396003975 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 388396003976 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...; Region: cbb3_Oxidase_CcoQ; cl00282 388396003977 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 388396003978 Cytochrome c; Region: Cytochrom_C; cl11414 388396003979 Cytochrome c; Region: Cytochrom_C; cl11414 388396003980 FixH; Region: FixH; cl01254 388396003981 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 388396003982 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 388396003983 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 388396003984 metal-binding site [ion binding] 388396003985 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 388396003986 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; cl11391 388396003987 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 388396003988 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 388396003989 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 388396003990 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 388396003991 ligand binding site [chemical binding]; other site 388396003992 flexible hinge region; other site 388396003993 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 388396003994 putative switch regulator; other site 388396003995 non-specific DNA interactions [nucleotide binding]; other site 388396003996 DNA binding site [nucleotide binding] 388396003997 sequence specific DNA binding site [nucleotide binding]; other site 388396003998 putative cAMP binding site [chemical binding]; other site 388396003999 universal stress protein UspE; Provisional; Region: PRK11175 388396004000 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 388396004001 Ligand Binding Site [chemical binding]; other site 388396004002 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 388396004003 Ligand Binding Site [chemical binding]; other site 388396004004 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 388396004005 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...; Region: Alpha_ANH_like_II; cd01993 388396004006 Ligand Binding Site [chemical binding]; other site 388396004007 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 388396004008 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 388396004009 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 388396004010 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues...; Region: ABC_PotA_N; cd03300 388396004011 Walker A/P-loop; other site 388396004012 ATP binding site [chemical binding]; other site 388396004013 Q-loop/lid; other site 388396004014 ABC transporter signature motif; other site 388396004015 Walker B; other site 388396004016 D-loop; other site 388396004017 H-loop/switch region; other site 388396004018 TOBE domain; Region: TOBE_2; cl01440 388396004019 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396004020 dimer interface [polypeptide binding]; other site 388396004021 conserved gate region; other site 388396004022 putative PBP binding loops; other site 388396004023 ABC-ATPase subunit interface; other site 388396004024 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396004025 dimer interface [polypeptide binding]; other site 388396004026 conserved gate region; other site 388396004027 putative PBP binding loops; other site 388396004028 ABC-ATPase subunit interface; other site 388396004029 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 388396004030 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 388396004031 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 388396004032 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 388396004033 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...; Region: SIRT5_Af1_CobB; cd01412 388396004034 NAD+ binding site [chemical binding]; other site 388396004035 substrate binding site [chemical binding]; other site 388396004036 Zn binding site [ion binding]; other site 388396004037 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396004038 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396004039 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 388396004040 putative effector binding pocket; other site 388396004041 dimerization interface [polypeptide binding]; other site 388396004042 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 388396004043 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 388396004044 Nucleoside recognition; Region: Gate; cl00486 388396004045 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 388396004046 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 388396004047 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 388396004048 maltose O-acetyltransferase; Provisional; Region: PRK10092 388396004049 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 388396004050 active site 388396004051 substrate binding site [chemical binding]; other site 388396004052 trimer interface [polypeptide binding]; other site 388396004053 CoA binding site [chemical binding]; other site 388396004054 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 388396004055 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 388396004056 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 388396004057 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396004058 lytic murein transglycosylase; Provisional; Region: PRK11619 388396004059 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 catalyze...; Region: LT_GEWL; cd00254 388396004060 N-acetyl-D-glucosamine binding site [chemical binding]; other site 388396004061 catalytic residue [active] 388396004062 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 388396004063 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 388396004064 VRR-NUC domain; Region: VRR_NUC; pfam08774 388396004065 putative efflux protein, MATE family; Region: matE; TIGR00797 388396004066 MatE; Region: MatE; pfam01554 388396004067 MatE; Region: MatE; pfam01554 388396004068 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 388396004069 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396004070 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 388396004071 dimerization interface [polypeptide binding]; other site 388396004072 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 388396004073 maltose O-acetyltransferase; Provisional; Region: PRK10092 388396004074 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 388396004075 active site 388396004076 substrate binding site [chemical binding]; other site 388396004077 trimer interface [polypeptide binding]; other site 388396004078 CoA binding site [chemical binding]; other site 388396004079 LysE type translocator; Region: LysE; cl00565 388396004080 YdjC-like protein; Region: YdjC; cl01344 388396004081 Cupin domain; Region: Cupin_2; cl09118 388396004082 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 388396004083 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 388396004084 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 388396004085 Coenzyme A binding pocket [chemical binding]; other site 388396004086 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 388396004087 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396004088 hypothetical protein; Provisional; Region: PRK10220 388396004089 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 388396004090 PhnA protein; Region: PhnA; pfam03831 388396004091 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396004092 metal binding site [ion binding]; metal-binding site 388396004093 active site 388396004094 I-site; other site 388396004095 Cupin domain; Region: Cupin_2; cl09118 388396004096 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 388396004097 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 388396004098 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_36; cd04695 388396004099 nudix motif; other site 388396004100 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396004101 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 388396004102 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 protein...; Region: CSP_CDS; cd04458 388396004103 DNA-binding site [nucleotide binding]; DNA binding site 388396004104 RNA-binding motif; other site 388396004105 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 388396004106 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 388396004107 putative active site [active] 388396004108 putative NTP binding site [chemical binding]; other site 388396004109 putative nucleic acid binding site [nucleotide binding]; other site 388396004110 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 388396004111 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 388396004112 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 388396004113 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 388396004114 [4Fe-4S] binding site [ion binding]; other site 388396004115 molybdopterin cofactor binding site; other site 388396004116 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 388396004117 molybdopterin cofactor binding site; other site 388396004118 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 388396004119 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 388396004120 Ferredoxin [Energy production and conversion]; Region: COG1146 388396004121 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 alpha-; Region: HCP_like; cl14655 388396004122 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 388396004123 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 388396004124 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 388396004125 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 388396004126 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...; Region: PBPb; cd00134 388396004127 substrate binding pocket [chemical binding]; other site 388396004128 membrane-bound complex binding site; other site 388396004129 hinge residues; other site 388396004130 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 388396004131 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 388396004132 substrate binding pocket [chemical binding]; other site 388396004133 membrane-bound complex binding site; other site 388396004134 hinge residues; other site 388396004135 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 388396004136 Zn2+ binding site [ion binding]; other site 388396004137 Mg2+ binding site [ion binding]; other site 388396004138 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 388396004139 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 388396004140 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 catalyze...; Region: LT_GEWL; cd00254 388396004141 N-acetyl-D-glucosamine binding site [chemical binding]; other site 388396004142 catalytic residue [active] 388396004143 Cache domain; Region: Cache_1; pfam02743 388396004144 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 388396004145 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 connected by an extended linker. The...; Region: HAMP; cd06225 388396004146 dimerization interface [polypeptide binding]; other site 388396004147 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396004148 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396004149 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; cd00501 388396004150 putative substrate binding pocket [chemical binding]; other site 388396004151 AC domain interface; other site 388396004152 catalytic triad [active] 388396004153 AB domain interface; other site 388396004154 interchain disulfide; other site 388396004155 Protein of unknown function (DUF979); Region: DUF979; cl01572 388396004156 Protein of unknown function (DUF969); Region: DUF969; cl01573 388396004157 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 388396004158 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 388396004159 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 388396004160 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 388396004161 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 388396004162 LamB/YcsF family; Region: LamB_YcsF; cl00664 388396004163 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 388396004164 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396004165 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396004166 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 388396004167 dimerization interface [polypeptide binding]; other site 388396004168 Sulfatase; Region: Sulfatase; cl10460 388396004169 Beta-lactamase; Region: Beta-lactamase; cl01009 388396004170 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 388396004171 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396004172 Peptidase family U32; Region: Peptidase_U32; cl03113 388396004173 Collagenase; Region: DUF3656; pfam12392 388396004174 Peptidase family U32; Region: Peptidase_U32; cl03113 388396004175 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 388396004176 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...; Region: GST_N_Omega_like; cd03060 388396004177 putative GSH binding site (G-site) [chemical binding]; other site 388396004178 active site cysteine [active] 388396004179 putative C-terminal domain interface [polypeptide binding]; other site 388396004180 putative dimer interface [polypeptide binding]; other site 388396004181 GST_C family, unknown subfamily 5; 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_C_5; cd03196 388396004182 putative dimer interface [polypeptide binding]; other site 388396004183 putative substrate binding pocket (H-site) [chemical binding]; other site 388396004184 putative N-terminal domain interface [polypeptide binding]; other site 388396004185 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396004186 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396004187 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 388396004188 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...; Region: TST_Repeat_1; cd01448 388396004189 active site residue [active] 388396004190 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 388396004191 active site residue [active] 388396004192 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 388396004193 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 388396004194 putative NAD(P) binding site [chemical binding]; other site 388396004195 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 388396004196 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 388396004197 Coenzyme A binding pocket [chemical binding]; other site 388396004198 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 388396004199 Glycoside hydrolase family 19 chitinase domain. Chitinases are enzymes that catalyze the hydrolysis of the beta-1,4-N-acetyl-D-glucosamine linkages in chitin polymers. Family 19 chitinases are found primarily in plants (classes I, III, and IV), but...; Region: chitinase_glyco_hydro_19; cd00325 388396004200 putative sugar binding site [chemical binding]; other site 388396004201 catalytic residues [active] 388396004202 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 388396004203 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 388396004204 chitin/cellulose binding site [chemical binding]; other site 388396004205 BCCT family transporter; Region: BCCT; cl00569 388396004206 Predicted membrane protein [Function unknown]; Region: COG3212 388396004207 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 388396004208 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 388396004209 active site 388396004210 phosphorylation site [posttranslational modification] 388396004211 intermolecular recognition site; other site 388396004212 dimerization interface [polypeptide binding]; other site 388396004213 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...; Region: trans_reg_C; cd00383 388396004214 DNA binding site [nucleotide binding] 388396004215 sensor protein PhoQ; Provisional; Region: PRK10815 388396004216 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 388396004217 ATP binding site [chemical binding]; other site 388396004218 Mg2+ binding site [ion binding]; other site 388396004219 G-X-G motif; other site 388396004220 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 388396004221 Gammaherpesvirus latent membrane protein (LMP2) protein; Region: Herpes_LMP2; pfam07415 388396004222 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 388396004223 active site 388396004224 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 388396004225 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 trans-...; Region: HisKA; cd00082 388396004226 dimer interface [polypeptide binding]; other site 388396004227 phosphorylation site [posttranslational modification] 388396004228 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 388396004229 ATP binding site [chemical binding]; other site 388396004230 Mg2+ binding site [ion binding]; other site 388396004231 G-X-G motif; other site 388396004232 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 388396004233 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 388396004234 active site 388396004235 phosphorylation site [posttranslational modification] 388396004236 intermolecular recognition site; other site 388396004237 dimerization interface [polypeptide binding]; other site 388396004238 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...; Region: AAA; cd00009 388396004239 Walker A motif; other site 388396004240 ATP binding site [chemical binding]; other site 388396004241 Walker B motif; other site 388396004242 arginine finger; other site 388396004243 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 388396004244 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 388396004245 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 388396004246 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396004247 dimer interface [polypeptide binding]; other site 388396004248 conserved gate region; other site 388396004249 putative PBP binding loops; other site 388396004250 ABC-ATPase subunit interface; other site 388396004251 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 388396004252 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 388396004253 Walker A/P-loop; other site 388396004254 ATP binding site [chemical binding]; other site 388396004255 Q-loop/lid; other site 388396004256 ABC transporter signature motif; other site 388396004257 Walker B; other site 388396004258 D-loop; other site 388396004259 H-loop/switch region; other site 388396004260 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 388396004261 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 388396004262 GTP binding site [chemical binding]; other site 388396004263 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional; Region: PRK14491 388396004264 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 388396004265 Walker A motif; other site 388396004266 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 388396004267 dimer interface [polypeptide binding]; other site 388396004268 putative functional site; other site 388396004269 putative MPT binding site; other site 388396004270 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 388396004271 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 388396004272 putative peptidoglycan binding site; other site 388396004273 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 388396004274 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 388396004275 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 388396004276 Protein of unknown function (DUF796); Region: DUF796; cl01226 388396004277 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 388396004278 fructokinase; Reviewed; Region: PRK09557 388396004279 DTW domain; Region: DTW; cl01221 388396004280 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 388396004281 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; cl09110 388396004282 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 388396004283 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 388396004284 NlpC/P60 family; Region: NLPC_P60; cl11438 388396004285 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 388396004286 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 388396004287 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 388396004288 Lumazine binding domain; Region: Lum_binding; pfam00677 388396004289 Lumazine binding domain; Region: Lum_binding; pfam00677 388396004290 multidrug efflux protein; Reviewed; Region: PRK01766 388396004291 MatE; Region: MatE; pfam01554 388396004292 MatE; Region: MatE; pfam01554 388396004293 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 388396004294 binding surface 388396004295 TPR motif; other site 388396004296 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 388396004297 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 388396004298 FeS/SAM binding site; other site 388396004299 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 388396004300 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 388396004301 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396004302 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396004303 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 388396004304 putative substrate binding pocket [chemical binding]; other site 388396004305 putative dimerization interface [polypeptide binding]; other site 388396004306 hypothetical protein; Provisional; Region: PRK13685 388396004307 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 388396004308 metal ion-dependent adhesion site (MIDAS); other site 388396004309 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 para-...; Region: vWA_BatA_type; cd01467 388396004310 metal ion-dependent adhesion site (MIDAS); other site 388396004311 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 388396004312 Protein of unknown function DUF58; Region: DUF58; pfam01882 388396004313 MoxR-like ATPases [General function prediction only]; Region: COG0714 388396004314 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...; Region: AAA; cd00009 388396004315 Walker A motif; other site 388396004316 ATP binding site [chemical binding]; other site 388396004317 Walker B motif; other site 388396004318 arginine finger; other site 388396004319 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 388396004320 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 388396004321 heme-binding residues [chemical binding]; other site 388396004322 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 388396004323 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 388396004324 binding surface 388396004325 TPR motif; other site 388396004326 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 388396004327 Sulfatase; Region: Sulfatase; cl10460 388396004328 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 388396004329 Sulfatase; Region: Sulfatase; cl10460 388396004330 Sulfatase; Region: Sulfatase; cl10460 388396004331 transcriptional regulator EutR; Provisional; Region: PRK10130 388396004332 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 388396004333 Sulfatase; Region: Sulfatase; cl10460 388396004334 Nitrogen fixation protein NifW; Region: NifW; cl03935 388396004335 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...; Region: Sigma70_r4; cl01055 388396004336 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; Region: NifX_NifB; cl00252 388396004337 Protein of unknown function (DUF539); Region: DUF539; cl01129 388396004338 hypothetical protein; Provisional; Region: PRK11770 388396004339 Domain of unknown function (DUF307); Region: DUF307; pfam03733 388396004340 Domain of unknown function (DUF307); Region: DUF307; pfam03733 388396004341 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 388396004342 ATP binding site [chemical binding]; other site 388396004343 Mg++ binding site [ion binding]; other site 388396004344 motif III; other site 388396004345 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 388396004346 nucleotide binding region [chemical binding]; other site 388396004347 ATP-binding site [chemical binding]; other site 388396004348 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 388396004349 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 388396004350 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 388396004351 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 388396004352 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 388396004353 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 388396004354 Walker A/P-loop; other site 388396004355 ATP binding site [chemical binding]; other site 388396004356 Q-loop/lid; other site 388396004357 ABC transporter signature motif; other site 388396004358 Walker B; other site 388396004359 D-loop; other site 388396004360 H-loop/switch region; other site 388396004361 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 388396004362 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 388396004363 TM-ABC transporter signature motif; other site 388396004364 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 388396004365 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 388396004366 ligand binding site [chemical binding]; other site 388396004367 dimerization interface [polypeptide binding]; other site 388396004368 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...; Region: ribokinase; cd01174 388396004369 substrate binding site [chemical binding]; other site 388396004370 dimer interface [polypeptide binding]; other site 388396004371 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 388396004372 ATP binding site [chemical binding]; other site 388396004373 transcriptional repressor RbsR; Provisional; Region: PRK10423 388396004374 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 388396004375 DNA binding site [nucleotide binding] 388396004376 domain linker motif; other site 388396004377 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 388396004378 dimerization interface [polypeptide binding]; other site 388396004379 ligand binding site [chemical binding]; other site 388396004380 DNA ligase; Provisional; Region: PRK09125 388396004381 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 388396004382 DNA binding site [nucleotide binding] 388396004383 active site 388396004384 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 388396004385 DNA binding site [nucleotide binding] 388396004386 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 388396004387 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 388396004388 generic binding surface I; other site 388396004389 generic binding surface II; other site 388396004390 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 388396004391 putative catalytic site [active] 388396004392 putative metal binding site [ion binding]; other site 388396004393 putative phosphate binding site [ion binding]; other site 388396004394 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 388396004395 MatE; Region: MatE; pfam01554 388396004396 MatE; Region: MatE; pfam01554 388396004397 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 388396004398 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 388396004399 Mechanosensitive ion channel; Region: MS_channel; pfam00924 388396004400 LysE type translocator; Region: LysE; cl00565 388396004401 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 388396004402 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 388396004403 active site 388396004404 Zn binding site [ion binding]; other site 388396004405 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 388396004406 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants...; Region: Thr-synth_1; cd01563 388396004407 homodimer interface [polypeptide binding]; other site 388396004408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396004409 catalytic residue [active] 388396004410 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 388396004411 homotrimer interaction site [polypeptide binding]; other site 388396004412 putative active site [active] 388396004413 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396004414 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396004415 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 388396004416 dimerization interface [polypeptide binding]; other site 388396004417 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 388396004418 non-specific DNA binding site [nucleotide binding]; other site 388396004419 salt bridge; other site 388396004420 sequence-specific DNA binding site [nucleotide binding]; other site 388396004421 HipA N-terminal domain; Region: couple_hipA; TIGR03071 388396004422 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 388396004423 HipA-like N-terminal domain; Region: HipA_N; pfam07805 388396004424 HipA-like C-terminal domain; Region: HipA_C; pfam07804 388396004425 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 388396004426 Protein of unknown function (DUF3081); Region: DUF3081; pfam11280 388396004427 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 388396004428 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396004429 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396004430 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 388396004431 dimerization interface [polypeptide binding]; other site 388396004432 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 388396004433 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 388396004434 active site 388396004435 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 388396004436 Sel1 repeat; Region: Sel1; cl02723 388396004437 Sel1 repeat; Region: Sel1; cl02723 388396004438 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...; Region: DnaJ; cd06257 388396004439 HSP70 interaction site [polypeptide binding]; other site 388396004440 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-...; Region: MIP; cd00333 388396004441 amphipathic channel; other site 388396004442 Asn-Pro-Ala signature motifs; other site 388396004443 YceI-like domain; Region: YceI; cl01001 388396004444 exonuclease I; Provisional; Region: sbcB; PRK11779 388396004445 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 388396004446 active site 388396004447 substrate binding site [chemical binding]; other site 388396004448 catalytic site [active] 388396004449 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 388396004450 LrgA family; Region: LrgA; cl00608 388396004451 LrgB-like family; Region: LrgB; cl00596 388396004452 cytidine deaminase; Provisional; Region: PRK09027 388396004453 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 388396004454 active site 388396004455 catalytic motif [active] 388396004456 Zn binding site [ion binding]; other site 388396004457 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 388396004458 active site 388396004459 catalytic motif [active] 388396004460 Zn binding site [ion binding]; other site 388396004461 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 388396004462 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 388396004463 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396004464 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 388396004465 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 388396004466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396004467 homodimer interface [polypeptide binding]; other site 388396004468 catalytic residue [active] 388396004469 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 388396004470 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396004471 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 388396004472 substrate binding site [chemical binding]; other site 388396004473 dimerization interface [polypeptide binding]; other site 388396004474 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 388396004475 active site 388396004476 dinuclear metal binding site [ion binding]; other site 388396004477 dimerization interface [polypeptide binding]; other site 388396004478 Protein of unknown function (DUF342); Region: DUF342; pfam03961 388396004479 Glutaredoxin (GRX) family, GRX human class 1 and 2 (h_1_2)-like subfamily; composed of proteins similar to human GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase...; Region: GRX_GRXh_1_2_like; cd03419 388396004480 GSH binding site [chemical binding]; other site 388396004481 catalytic residues [active] 388396004482 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 388396004483 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 388396004484 ATP binding site [chemical binding]; other site 388396004485 active site 388396004486 substrate binding site [chemical binding]; other site 388396004487 Surface antigen; Region: Surface_Ag_2; cl01155 388396004488 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 388396004489 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 388396004490 ATP binding site [chemical binding]; other site 388396004491 putative Mg++ binding site [ion binding]; other site 388396004492 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 388396004493 nucleotide binding region [chemical binding]; other site 388396004494 ATP-binding site [chemical binding]; other site 388396004495 Helicase associated domain (HA2); Region: HA2; cl04503 388396004496 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 388396004497 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 388396004498 DsrC like protein; Region: DsrC; cl01101 388396004499 Acylphosphatase; Region: Acylphosphatase; cl00551 388396004500 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396004501 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 388396004502 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396004503 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 388396004504 PUA domain; Region: PUA; cl00607 388396004505 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 388396004506 S-adenosylmethionine binding site [chemical binding]; other site 388396004507 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004508 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004509 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004510 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004511 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004512 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004513 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004514 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004515 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004516 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004517 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004518 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004519 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004520 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004521 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004522 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004523 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004524 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004525 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004526 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004527 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004528 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004529 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004530 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004531 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004532 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004533 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004534 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004535 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004536 VCBS repeat; Region: VCBS_repeat; TIGR01965 388396004537 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 388396004538 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; cl09110 388396004539 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 388396004540 isoaspartyl dipeptidase; Provisional; Region: PRK10657 388396004541 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...; Region: metallo-dependent_hydrolases; cl00281 388396004542 active site 388396004543 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396004544 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396004545 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 388396004546 dimerization interface [polypeptide binding]; other site 388396004547 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 388396004548 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 388396004549 active site 388396004550 metal binding site [ion binding]; metal-binding site 388396004551 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 388396004552 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; cl12011 388396004553 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 388396004554 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 388396004555 active site 388396004556 substrate binding site [chemical binding]; other site 388396004557 catalytic site [active] 388396004558 CHASE domain; Region: CHASE; cl01369 388396004559 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396004560 metal binding site [ion binding]; metal-binding site 388396004561 active site 388396004562 I-site; other site 388396004563 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 388396004564 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 388396004565 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 388396004566 DNA-K related protein; Region: DUF3731; pfam12531 388396004567 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 388396004568 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 388396004569 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 388396004570 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 388396004571 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 388396004572 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 388396004573 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; cl11391 388396004574 FOG: CBS domain [General function prediction only]; Region: COG0517 388396004575 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-...; Region: CBS_pair_16; cd04629 388396004576 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 388396004577 FAD binding domain; Region: FAD_binding_4; pfam01565 388396004578 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 388396004579 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 388396004580 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cd00411 388396004581 active site/substrate binding site [active] 388396004582 tetramer interface [polypeptide binding]; other site 388396004583 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 388396004584 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 388396004585 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 388396004586 DNA-binding site [nucleotide binding]; DNA binding site 388396004587 UTRA domain; Region: UTRA; cl06649 388396004588 siroheme synthase, N-terminal domain; Region: cysG_Nterm; TIGR01470 388396004589 precorrin-2 dehydrogenase; Validated; Region: PRK06719 388396004590 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 388396004591 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 388396004592 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 388396004593 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...; Region: PBPb; cd00134 388396004594 substrate binding pocket [chemical binding]; other site 388396004595 membrane-bound complex binding site; other site 388396004596 hinge residues; other site 388396004597 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 388396004598 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 388396004599 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396004600 dimer interface [polypeptide binding]; other site 388396004601 conserved gate region; other site 388396004602 putative PBP binding loops; other site 388396004603 ABC-ATPase subunit interface; other site 388396004604 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 388396004605 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396004606 dimer interface [polypeptide binding]; other site 388396004607 conserved gate region; other site 388396004608 putative PBP binding loops; other site 388396004609 ABC-ATPase subunit interface; other site 388396004610 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 388396004611 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 388396004612 Walker A/P-loop; other site 388396004613 ATP binding site [chemical binding]; other site 388396004614 Q-loop/lid; other site 388396004615 ABC transporter signature motif; other site 388396004616 Walker B; other site 388396004617 D-loop; other site 388396004618 H-loop/switch region; other site 388396004619 BAX inhibitor (BI)-1 like protein family. Mammalian members of this family of small transmembrane proteins have been shown to have an antiapoptotic effect either by stimulating the antiapoptotic function of Bcl-2, a well characterized oncogene, or...; Region: BI-1-like; cd06181 388396004620 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 388396004621 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...; Region: AAA; cd00009 388396004622 Walker A motif; other site 388396004623 ATP binding site [chemical binding]; other site 388396004624 Walker B motif; other site 388396004625 arginine finger; other site 388396004626 Mechanosensitive ion channel; Region: MS_channel; pfam00924 388396004627 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 388396004628 Sel1 repeat; Region: Sel1; cl02723 388396004629 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or...; Region: Nudix_Hydrolase; cl00447 388396004630 nudix motif; other site 388396004631 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 388396004632 active site 388396004633 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 388396004634 Coenzyme A binding pocket [chemical binding]; other site 388396004635 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 388396004636 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 388396004637 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 388396004638 active site 388396004639 cell density-dependent motility repressor; Provisional; Region: PRK10082 388396004640 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396004641 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 388396004642 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 388396004643 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 388396004644 aspartate racemase; Region: asp_race; TIGR00035 388396004645 Cytochrome C biogenesis protein; Region: CcmH; cl01179 388396004646 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 388396004647 catalytic residues [active] 388396004648 central insert; other site 388396004649 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 388396004650 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl01295 388396004651 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 388396004652 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 388396004653 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 alpha-; Region: HCP_like; cl14655 388396004654 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 388396004655 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; cl10556 388396004656 Cytochrome c552; Region: Cytochrom_C552; pfam02335 388396004657 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 388396004658 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 Gram-...; Region: OMPLA; cd00541 388396004659 dimerization interface [polypeptide binding]; other site 388396004660 substrate binding site [chemical binding]; other site 388396004661 active site 388396004662 calcium binding site [ion binding]; other site 388396004663 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 388396004664 ATP binding site [chemical binding]; other site 388396004665 putative Mg++ binding site [ion binding]; other site 388396004666 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 388396004667 nucleotide binding region [chemical binding]; other site 388396004668 ATP-binding site [chemical binding]; other site 388396004669 Helicase associated domain (HA2); Region: HA2; cl04503 388396004670 malate dehydrogenase; Provisional; Region: PRK13529 388396004671 Malic enzyme, N-terminal domain; Region: malic; pfam00390 388396004672 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 388396004673 NAD(P) binding site [chemical binding]; other site 388396004674 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 388396004675 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 388396004676 putative active site [active] 388396004677 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396004678 metal binding site [ion binding]; metal-binding site 388396004679 active site 388396004680 I-site; other site 388396004681 MltA-interacting protein MipA; Region: MipA; cl01504 388396004682 Cobalt transport protein; Region: CbiQ; cl00463 388396004683 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 388396004684 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 388396004685 Walker A/P-loop; other site 388396004686 ATP binding site [chemical binding]; other site 388396004687 Q-loop/lid; other site 388396004688 ABC transporter signature motif; other site 388396004689 Walker B; other site 388396004690 D-loop; other site 388396004691 H-loop/switch region; other site 388396004692 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 388396004693 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 388396004694 Walker A/P-loop; other site 388396004695 ATP binding site [chemical binding]; other site 388396004696 Q-loop/lid; other site 388396004697 ABC transporter signature motif; other site 388396004698 Walker B; other site 388396004699 D-loop; other site 388396004700 H-loop/switch region; other site 388396004701 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 388396004702 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 388396004703 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 388396004704 PseudoU_synth_RluF_like: Pseudouridine synthase, Escherichia coli RluF like. This group is comprised of bacterial proteins similar to Escherichia coli RluF. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluF; cd02554 388396004705 probable active site [active] 388396004706 V-type ATP synthase subunit I; Validated; Region: PRK05771 388396004707 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 388396004708 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 388396004709 active site 388396004710 phosphorylation site [posttranslational modification] 388396004711 intermolecular recognition site; other site 388396004712 dimerization interface [polypeptide binding]; other site 388396004713 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...; Region: trans_reg_C; cd00383 388396004714 DNA binding site [nucleotide binding] 388396004715 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 388396004716 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 388396004717 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 388396004718 DNA binding site [nucleotide binding] 388396004719 domain linker motif; other site 388396004720 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 388396004721 dimerization interface [polypeptide binding]; other site 388396004722 ligand binding site [chemical binding]; other site 388396004723 TfoX N-terminal domain; Region: TfoX_N; cl01167 388396004724 TfoX N-terminal domain; Region: TfoX_N; cl01167 388396004725 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 388396004726 DNA binding site [nucleotide binding] 388396004727 active site 388396004728 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 388396004729 acyl-CoA thioesterase II; Provisional; Region: PRK10526 388396004730 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 388396004731 active site 388396004732 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 388396004733 catalytic triad [active] 388396004734 dimer interface [polypeptide binding]; other site 388396004735 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 388396004736 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396004737 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 388396004738 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 388396004739 dimer interface [polypeptide binding]; other site 388396004740 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396004741 catalytic residue [active] 388396004742 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 388396004743 Ligand Binding Site [chemical binding]; other site 388396004744 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 388396004745 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 388396004746 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 388396004747 putative phosphate binding site [ion binding]; other site 388396004748 putative catalytic site [active] 388396004749 active site 388396004750 metal binding site A [ion binding]; metal-binding site 388396004751 DNA binding site [nucleotide binding] 388396004752 putative AP binding site [nucleotide binding]; other site 388396004753 putative metal binding site B [ion binding]; other site 388396004754 glutaredoxin 2; Provisional; Region: PRK10387 388396004755 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-...; Region: GST_N_GRX2; cd03037 388396004756 C-terminal domain interface [polypeptide binding]; other site 388396004757 GSH binding site (G-site) [chemical binding]; other site 388396004758 catalytic residues [active] 388396004759 putative dimer interface [polypeptide binding]; other site 388396004760 GST_C family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD (most GRXs range from 9-12kD). GRX2 adopts a GST fold containing an N-terminal thioredoxin-fold...; Region: GST_C_GRX2; cd03199 388396004761 putative dimer interface [polypeptide binding]; other site 388396004762 putative substrate binding pocket (H-site) [chemical binding]; other site 388396004763 N-terminal domain interface [polypeptide binding]; other site 388396004764 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 388396004765 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396004766 dimer interface [polypeptide binding]; other site 388396004767 conserved gate region; other site 388396004768 putative PBP binding loops; other site 388396004769 ABC-ATPase subunit interface; other site 388396004770 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 388396004771 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 388396004772 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396004773 putative PBP binding loops; other site 388396004774 dimer interface [polypeptide binding]; other site 388396004775 ABC-ATPase subunit interface; other site 388396004776 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 388396004777 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...; Region: PBPb; cd00134 388396004778 substrate binding pocket [chemical binding]; other site 388396004779 membrane-bound complex binding site; other site 388396004780 hinge residues; other site 388396004781 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 388396004782 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 388396004783 Walker A/P-loop; other site 388396004784 ATP binding site [chemical binding]; other site 388396004785 Q-loop/lid; other site 388396004786 ABC transporter signature motif; other site 388396004787 Walker B; other site 388396004788 D-loop; other site 388396004789 H-loop/switch region; other site 388396004790 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 388396004791 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 388396004792 Pyruvate formate lyase 1; Region: PFL1; cd01678 388396004793 coenzyme A binding site [chemical binding]; other site 388396004794 active site 388396004795 catalytic residues [active] 388396004796 glycine loop; other site 388396004797 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 388396004798 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 388396004799 FeS/SAM binding site; other site 388396004800 Cupin superfamily protein; Region: Cupin_4; pfam08007 388396004801 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 388396004802 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 388396004803 Walker A/P-loop; other site 388396004804 ATP binding site [chemical binding]; other site 388396004805 Q-loop/lid; other site 388396004806 ABC transporter signature motif; other site 388396004807 Walker B; other site 388396004808 D-loop; other site 388396004809 H-loop/switch region; other site 388396004810 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 388396004811 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 388396004812 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 388396004813 Walker A/P-loop; other site 388396004814 ATP binding site [chemical binding]; other site 388396004815 Q-loop/lid; other site 388396004816 ABC transporter signature motif; other site 388396004817 Walker B; other site 388396004818 D-loop; other site 388396004819 H-loop/switch region; other site 388396004820 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 388396004821 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 388396004822 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 388396004823 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396004824 dimer interface [polypeptide binding]; other site 388396004825 conserved gate region; other site 388396004826 putative PBP binding loops; other site 388396004827 ABC-ATPase subunit interface; other site 388396004828 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 388396004829 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396004830 dimer interface [polypeptide binding]; other site 388396004831 conserved gate region; other site 388396004832 putative PBP binding loops; other site 388396004833 ABC-ATPase subunit interface; other site 388396004834 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 388396004835 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 388396004836 peptide binding site [polypeptide binding]; other site 388396004837 Chitinase N-terminus domain. Chitinases hydrolyze the abundant natural biopolymer chitin, producing smaller chito-oligosaccharides. Chitin consists of multiple N-acetyl-D-glucosamine (NAG) residues connected via beta-1,4-glycosidic linkages and is an...; Region: Chitinase_N_term; cd02848 388396004838 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 388396004839 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is...; Region: GH18_chitinase; cd06548 388396004840 active site 388396004841 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 388396004842 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 388396004843 chitin/cellulose binding site [chemical binding]; other site 388396004844 Thymidine kinase; Region: TK; cl00631 388396004845 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 388396004846 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 388396004847 active site 388396004848 HIGH motif; other site 388396004849 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 388396004850 KMSKS motif; other site 388396004851 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 388396004852 tRNA binding surface [nucleotide binding]; other site 388396004853 anticodon binding site; other site 388396004854 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 388396004855 substrate binding site [chemical binding]; other site 388396004856 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 388396004857 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 388396004858 putative active site [active] 388396004859 putative metal binding site [ion binding]; other site 388396004860 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 388396004861 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 388396004862 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 388396004863 SEC-C motif; Region: SEC-C; cl12132 388396004864 hypothetical protein; Provisional; Region: PRK04233 388396004865 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 388396004866 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 388396004867 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 388396004868 putative active site [active] 388396004869 catalytic site [active] 388396004870 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 388396004871 putative active site [active] 388396004872 catalytic site [active] 388396004873 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 388396004874 active site 388396004875 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 388396004876 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 388396004877 dimer interface [polypeptide binding]; other site 388396004878 putative functional site; other site 388396004879 putative MPT binding site; other site 388396004880 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 388396004881 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...; Region: ThiF_MoeB_HesA_family; cd00757 388396004882 ATP binding site [chemical binding]; other site 388396004883 substrate interface [chemical binding]; other site 388396004884 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 388396004885 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 388396004886 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396004887 dimer interface [polypeptide binding]; other site 388396004888 conserved gate region; other site 388396004889 putative PBP binding loops; other site 388396004890 ABC-ATPase subunit interface; other site 388396004891 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 388396004892 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396004893 dimer interface [polypeptide binding]; other site 388396004894 conserved gate region; other site 388396004895 putative PBP binding loops; other site 388396004896 ABC-ATPase subunit interface; other site 388396004897 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14253 388396004898 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 388396004899 Walker A/P-loop; other site 388396004900 ATP binding site [chemical binding]; other site 388396004901 Q-loop/lid; other site 388396004902 ABC transporter signature motif; other site 388396004903 Walker B; other site 388396004904 D-loop; other site 388396004905 H-loop/switch region; other site 388396004906 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; cl09944 388396004907 active site 388396004908 phosphorylation site [posttranslational modification] 388396004909 intermolecular recognition site; other site 388396004910 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 388396004911 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 388396004912 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 connected by an extended linker. The...; Region: HAMP; cd06225 388396004913 dimerization interface [polypeptide binding]; other site 388396004914 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396004915 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 388396004916 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396004917 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 trans-...; Region: HisKA; cd00082 388396004918 dimer interface [polypeptide binding]; other site 388396004919 phosphorylation site [posttranslational modification] 388396004920 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 388396004921 ATP binding site [chemical binding]; other site 388396004922 Mg2+ binding site [ion binding]; other site 388396004923 G-X-G motif; other site 388396004924 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 388396004925 active site 388396004926 phosphorylation site [posttranslational modification] 388396004927 intermolecular recognition site; other site 388396004928 dimerization interface [polypeptide binding]; other site 388396004929 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 388396004930 putative binding surface; other site 388396004931 active site 388396004932 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 388396004933 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 388396004934 putative ligand binding site [chemical binding]; other site 388396004935 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 388396004936 active site 388396004937 dimer interfaces [polypeptide binding]; other site 388396004938 catalytic residues [active] 388396004939 DNA helicase IV; Provisional; Region: helD; PRK11054 388396004940 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 388396004941 UvrD/REP helicase; Region: UvrD-helicase; cl14126 388396004942 hypothetical membrane protein, TIGR01666; Region: YCCS 388396004943 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 388396004944 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 388396004945 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 388396004946 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 388396004947 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 388396004948 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 388396004949 UvrB/uvrC motif; Region: UVR; pfam02151 388396004950 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 388396004951 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 388396004952 response regulator; Provisional; Region: PRK09483 388396004953 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 388396004954 active site 388396004955 phosphorylation site [posttranslational modification] 388396004956 intermolecular recognition site; other site 388396004957 dimerization interface [polypeptide binding]; other site 388396004958 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...; Region: LuxR_C_like; cd06170 388396004959 DNA binding residues [nucleotide binding] 388396004960 dimerization interface [polypeptide binding]; other site 388396004961 DNA polymerase II; Reviewed; Region: PRK05762 388396004962 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 388396004963 active site 388396004964 catalytic site [active] 388396004965 substrate binding site [chemical binding]; other site 388396004966 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 388396004967 active site 388396004968 metal-binding site 388396004969 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 388396004970 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; cl09110 388396004971 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 388396004972 MltA-interacting protein MipA; Region: MipA; cl01504 388396004973 fatty acid metabolism regulator; Provisional; Region: PRK04984 388396004974 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 388396004975 DNA-binding site [nucleotide binding]; DNA binding site 388396004976 FCD domain; Region: FCD; cl11656 388396004977 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; cl09110 388396004978 transmembrane helices; other site 388396004979 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 388396004980 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 388396004981 SEC-C motif; Region: SEC-C; cl12132 388396004982 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...; Region: DUS_like_FMN; cd02801 388396004983 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 388396004984 FMN binding site [chemical binding]; other site 388396004985 active site 388396004986 catalytic residues [active] 388396004987 substrate binding site [chemical binding]; other site 388396004988 Cache domain; Region: Cache_1; pfam02743 388396004989 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396004990 metal binding site [ion binding]; metal-binding site 388396004991 active site 388396004992 I-site; other site 388396004993 DNA topoisomerase III; Provisional; Region: PRK07726 388396004994 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:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 388396004995 active site 388396004996 putative interdomain interaction site [polypeptide binding]; other site 388396004997 putative metal-binding site [ion binding]; other site 388396004998 putative nucleotide binding site [chemical binding]; other site 388396004999 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...; Region: TOP1Ac; cd00186 388396005000 domain I; other site 388396005001 DNA binding groove [nucleotide binding] 388396005002 phosphate binding site [ion binding]; other site 388396005003 domain II; other site 388396005004 domain III; other site 388396005005 nucleotide binding site [chemical binding]; other site 388396005006 catalytic site [active] 388396005007 domain IV; other site 388396005008 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 388396005009 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 388396005010 active site 388396005011 FMN binding site [chemical binding]; other site 388396005012 2,4-decadienoyl-CoA binding site; other site 388396005013 catalytic residue [active] 388396005014 4Fe-4S cluster binding site [ion binding]; other site 388396005015 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 388396005016 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396005017 protease 4; Provisional; Region: PRK10949 388396005018 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 388396005019 tandem repeat interface [polypeptide binding]; other site 388396005020 oligomer interface [polypeptide binding]; other site 388396005021 active site residues [active] 388396005022 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 388396005023 tandem repeat interface [polypeptide binding]; other site 388396005024 oligomer interface [polypeptide binding]; other site 388396005025 active site residues [active] 388396005026 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cd00411 388396005027 active site/substrate binding site [active] 388396005028 tetramer interface [polypeptide binding]; other site 388396005029 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 388396005030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396005031 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 388396005032 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 388396005033 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; cl09110 388396005034 Nucleoid-associated protein [General function prediction only]; Region: COG3081 388396005035 nucleoid-associated protein NdpA; Validated; Region: PRK00378 388396005036 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 388396005037 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 388396005038 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 388396005039 Sulfatase; Region: Sulfatase; cl10460 388396005040 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 388396005041 active site 388396005042 zinc binding site [ion binding]; other site 388396005043 Cache domain; Region: Cache_1; pfam02743 388396005044 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396005045 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396005046 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 388396005047 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 388396005048 Coenzyme A binding pocket [chemical binding]; other site 388396005049 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]; Region: CDC6; COG1474 388396005050 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...; Region: AAA; cd00009 388396005051 Walker A motif; other site 388396005052 ATP binding site [chemical binding]; other site 388396005053 Walker B motif; other site 388396005054 arginine finger; other site 388396005055 Mechanosensitive ion channel; Region: MS_channel; pfam00924 388396005056 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 388396005057 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 388396005058 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 388396005059 NADP binding site [chemical binding]; other site 388396005060 homodimer interface [polypeptide binding]; other site 388396005061 active site 388396005062 Flagellin N-methylase; Region: FliB; cl00497 388396005063 Flagellin N-methylase; Region: FliB; cl00497 388396005064 Phosphate-starvation-inducible E; Region: PsiE; cl01264 388396005065 Tim44-like domain; Region: Tim44; cl09208 388396005066 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 388396005067 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 388396005068 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 388396005069 putative acyl-acceptor binding pocket; other site 388396005070 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 388396005071 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 388396005072 O-succinylbenzoate synthase; Provisional; Region: PRK05105 388396005073 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 388396005074 active site 388396005075 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 388396005076 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 388396005077 substrate binding site [chemical binding]; other site 388396005078 oxyanion hole (OAH) forming residues; other site 388396005079 trimer interface [polypeptide binding]; other site 388396005080 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 388396005081 Putative serine esterase (DUF676); Region: DUF676; pfam05057 388396005082 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 388396005083 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 388396005084 dimer interface [polypeptide binding]; other site 388396005085 tetramer interface [polypeptide binding]; other site 388396005086 PYR/PP interface [polypeptide binding]; other site 388396005087 TPP binding site [chemical binding]; other site 388396005088 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 role in the menaquinone biosynthetic pathway, converting...; Region: TPP_SHCHC_synthase; cd02009 388396005089 TPP-binding site; other site 388396005090 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 388396005091 chorismate binding enzyme; Region: Chorismate_bind; cl10555 388396005092 tyrosine aminotransferase, eukaryotic; Region: tyr_amTase_E; TIGR01264 388396005093 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 388396005094 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396005095 homodimer interface [polypeptide binding]; other site 388396005096 catalytic residue [active] 388396005097 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 5,10-...; Region: DHFR; cl00161 388396005098 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 388396005099 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 388396005100 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 388396005101 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 388396005102 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 388396005103 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 388396005104 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 388396005105 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 388396005106 dimer interface [polypeptide binding]; other site 388396005107 active site 388396005108 metal binding site [ion binding]; metal-binding site 388396005109 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 388396005110 EamA-like transporter family; Region: EamA; cl01037 388396005111 EamA-like transporter family; Region: EamA; cl01037 388396005112 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 388396005113 NAD(P) binding site [chemical binding]; other site 388396005114 catalytic residues [active] 388396005115 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 388396005116 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 388396005117 DTW domain; Region: DTW; cl01221 388396005118 Rhomboid family; Region: Rhomboid; cl11446 388396005119 recombination protein RecR; Reviewed; Region: recR; PRK00076 388396005120 RecR protein; Region: RecR; pfam02132 388396005121 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 388396005122 putative active site [active] 388396005123 putative metal-binding site [ion binding]; other site 388396005124 tetramer interface [polypeptide binding]; other site 388396005125 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 388396005126 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 388396005127 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...; Region: AAA; cd00009 388396005128 Walker A motif; other site 388396005129 ATP binding site [chemical binding]; other site 388396005130 Walker B motif; other site 388396005131 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396005132 arginine finger; other site 388396005133 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 388396005134 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 388396005135 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 388396005136 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 388396005137 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 388396005138 active site 388396005139 response regulator of RpoS; Provisional; Region: PRK10693 388396005140 phosphorylation site [posttranslational modification] 388396005141 intermolecular recognition site; other site 388396005142 dimerization interface [polypeptide binding]; other site 388396005143 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396005144 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396005145 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 388396005146 putative effector binding pocket; other site 388396005147 dimerization interface [polypeptide binding]; other site 388396005148 amidophosphoribosyltransferase; Provisional; Region: PRK09246 388396005149 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 388396005150 active site 388396005151 tetramer interface [polypeptide binding]; other site 388396005152 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 388396005153 Colicin V production protein; Region: Colicin_V; cl00567 388396005154 cell division protein DedD; Provisional; Region: PRK11633 388396005155 Protein of unknown function (DUF740); Region: DUF740; pfam05340 388396005156 Sporulation related domain; Region: SPOR; cl10051 388396005157 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 388396005158 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 388396005159 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 388396005160 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 388396005161 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 388396005162 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 388396005163 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 388396005164 dimerization interface 3.5A [polypeptide binding]; other site 388396005165 active site 388396005166 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 388396005167 FimV N-terminal domain; Region: FimV_core; TIGR03505 388396005168 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 388396005169 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 388396005170 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 388396005171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396005172 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 388396005173 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 388396005174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396005175 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 388396005176 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 388396005177 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 388396005178 dimer interface [polypeptide binding]; other site 388396005179 active site 388396005180 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; cl12011 388396005181 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 388396005182 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 388396005183 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 388396005184 lytic murein transglycosylase; Region: MltB_2; TIGR02283 388396005185 YcgL domain; Region: YcgL; cl01189 388396005186 septum formation inhibitor; Reviewed; Region: minC; PRK04804 388396005187 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 388396005188 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 388396005189 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...; Region: MinD; cd02036 388396005190 Switch I; other site 388396005191 Switch II; other site 388396005192 Septum formation topological specificity factor MinE; Region: MinE; cl00538 388396005193 ribonuclease D; Provisional; Region: PRK10829 388396005194 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 388396005195 putative active site [active] 388396005196 catalytic site [active] 388396005197 putative substrate binding site [chemical binding]; other site 388396005198 HRDC domain; Region: HRDC; cl02578 388396005199 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 388396005200 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 388396005201 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 388396005202 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 388396005203 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 388396005204 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 388396005205 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 388396005206 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 388396005207 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; cl14882 388396005208 DEAD_2; Region: DEAD_2; cl14887 388396005209 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl09250 388396005210 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 388396005211 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 388396005212 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 388396005213 putative active site [active] 388396005214 putative substrate binding site [chemical binding]; other site 388396005215 putative cosubstrate binding site; other site 388396005216 catalytic site [active] 388396005217 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 388396005218 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 388396005219 Cupin domain; Region: Cupin_2; cl09118 388396005220 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 388396005221 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 388396005222 EamA-like transporter family; Region: EamA; cl01037 388396005223 EamA-like transporter family; Region: EamA; cl01037 388396005224 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 388396005225 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 388396005226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396005227 homodimer interface [polypeptide binding]; other site 388396005228 catalytic residue [active] 388396005229 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 388396005230 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 388396005231 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...; Region: PTS_IIB_glc; cd00212 388396005232 active site turn [active] 388396005233 phosphorylation site [posttranslational modification] 388396005234 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 388396005235 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 388396005236 DNA binding site [nucleotide binding] 388396005237 domain linker motif; other site 388396005238 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 388396005239 putative dimerization interface [polypeptide binding]; other site 388396005240 putative ligand binding site [chemical binding]; other site 388396005241 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 388396005242 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 388396005243 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 catalyses the last step in the production of methionine by...; Region: CIMS_N_terminal_like; cd03312 388396005244 THF binding site; other site 388396005245 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 catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 388396005246 substrate binding site [chemical binding]; other site 388396005247 THF binding site; other site 388396005248 zinc-binding site [ion binding]; other site 388396005249 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 388396005250 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396005251 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 388396005252 putative dimerization interface [polypeptide binding]; other site 388396005253 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; cl09110 388396005254 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 388396005255 hypothetical protein; Provisional; Region: PRK01254 388396005256 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; cl14056 388396005257 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 388396005258 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 388396005259 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 388396005260 active site 388396005261 HIGH motif; other site 388396005262 dimer interface [polypeptide binding]; other site 388396005263 KMSKS motif; other site 388396005264 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 388396005265 Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins; Region: NT_Pol-beta-like; cl11966 388396005266 metal binding triad [ion binding]; metal-binding site 388396005267 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 388396005268 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 388396005269 GST_C family, unknown subfamily 5; 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_C_5; cd03196 388396005270 putative N-terminal domain interface [polypeptide binding]; other site 388396005271 putative dimer interface [polypeptide binding]; other site 388396005272 putative substrate binding pocket (H-site) [chemical binding]; other site 388396005273 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 388396005274 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 388396005275 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...; Region: PTS_IIB_glc; cd00212 388396005276 active site turn [active] 388396005277 phosphorylation site [posttranslational modification] 388396005278 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 388396005279 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 388396005280 active site 388396005281 DNA polymerase III subunit delta'; Validated; Region: PRK06090 388396005282 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396005283 C terminal; Region: DNApol3-delta_C; pfam09115 388396005284 thymidylate kinase; Validated; Region: tmk; PRK00698 388396005285 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...; Region: TMPK; cd01672 388396005286 TMP-binding site; other site 388396005287 ATP-binding site [chemical binding]; other site 388396005288 YceG-like family; Region: YceG; pfam02618 388396005289 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 388396005290 dimerization interface [polypeptide binding]; other site 388396005291 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 388396005292 Aminotransferase class IV; Region: Aminotran_4; pfam01063 388396005293 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396005294 catalytic residue [active] 388396005295 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08722 388396005296 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 388396005297 dimer interface [polypeptide binding]; other site 388396005298 active site 388396005299 Phosphopantetheine attachment site; Region: PP-binding; cl09936 388396005300 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 388396005301 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 388396005302 NAD(P) binding site [chemical binding]; other site 388396005303 homotetramer interface [polypeptide binding]; other site 388396005304 homodimer interface [polypeptide binding]; other site 388396005305 active site 388396005306 Acyl transferase domain; Region: Acyl_transf_1; cl08282 388396005307 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 388396005308 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 388396005309 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 388396005310 dimer interface [polypeptide binding]; other site 388396005311 active site 388396005312 CoA binding pocket [chemical binding]; other site 388396005313 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 388396005314 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 388396005315 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 388396005316 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 388396005317 active site 388396005318 dimer interface [polypeptide binding]; other site 388396005319 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 388396005320 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 388396005321 RNA binding surface [nucleotide binding]; other site 388396005322 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 388396005323 active site 388396005324 ribonuclease E; Reviewed; Region: rne; PRK10811 388396005325 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 388396005326 homodimer interface [polypeptide binding]; other site 388396005327 oligonucleotide binding site [chemical binding]; other site 388396005328 ribonuclease E; Reviewed; Region: rne; PRK10811 388396005329 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 388396005330 Sulfate transporter family; Region: Sulfate_transp; cl00967 388396005331 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 388396005332 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 388396005333 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 388396005334 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...; Region: CobA_CobO_BtuR; cd00561 388396005335 homodimer interface [polypeptide binding]; other site 388396005336 Walker A motif; other site 388396005337 ATP binding site [chemical binding]; other site 388396005338 hydroxycobalamin binding site [chemical binding]; other site 388396005339 Walker B motif; other site 388396005340 AsmA family; Region: AsmA; pfam05170 388396005341 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 388396005342 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...; Region: UMPK; cd02023 388396005343 ATP-binding site [chemical binding]; other site 388396005344 Sugar specificity; other site 388396005345 Pyrimidine base specificity; other site 388396005346 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 388396005347 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 388396005348 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 388396005349 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 388396005350 active site 388396005351 HIGH motif; other site 388396005352 KMSKS motif; other site 388396005353 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 388396005354 tRNA binding surface [nucleotide binding]; other site 388396005355 anticodon binding site; other site 388396005356 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 388396005357 dimer interface [polypeptide binding]; other site 388396005358 putative tRNA-binding site [nucleotide binding]; other site 388396005359 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 contains two...; Region: OMP_decarboxylase_like; cd04725 388396005360 active site 388396005361 dimer interface [polypeptide binding]; other site 388396005362 tetratricopeptide repeat protein; Provisional; Region: PRK11788 388396005363 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 388396005364 binding surface 388396005365 TPR motif; other site 388396005366 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 388396005367 binding surface 388396005368 TPR motif; other site 388396005369 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 388396005370 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 higher-...; Region: HU_IHF; cd00591 388396005371 IHF dimer interface [polypeptide binding]; other site 388396005372 IHF - DNA interface [nucleotide binding]; other site 388396005373 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 388396005374 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 388396005375 RNA binding site [nucleotide binding]; other site 388396005376 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 388396005377 RNA binding site [nucleotide binding]; other site 388396005378 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 388396005379 RNA binding site [nucleotide binding]; other site 388396005380 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 388396005381 RNA binding site [nucleotide binding]; other site 388396005382 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 388396005383 RNA binding site [nucleotide binding]; other site 388396005384 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 of...; Region: S1_RPS1_repeat_ec6; cd05691 388396005385 RNA binding site [nucleotide binding]; other site 388396005386 cytidylate kinase; Provisional; Region: cmk; PRK00023 388396005387 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 388396005388 CMP-binding site; other site 388396005389 The sites determining sugar specificity; other site 388396005390 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 388396005391 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 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 388396005392 hinge; other site 388396005393 active site 388396005394 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 388396005395 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 388396005396 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 388396005397 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 388396005398 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 388396005399 rRNA binding site [nucleotide binding]; other site 388396005400 predicted 30S ribosome binding site; other site 388396005401 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 388396005402 Clp amino terminal domain; Region: Clp_N; pfam02861 388396005403 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...; Region: AAA; cd00009 388396005404 Walker A motif; other site 388396005405 ATP binding site [chemical binding]; other site 388396005406 Walker B motif; other site 388396005407 arginine finger; other site 388396005408 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...; Region: AAA; cd00009 388396005409 Walker A motif; other site 388396005410 ATP binding site [chemical binding]; other site 388396005411 Walker B motif; other site 388396005412 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 388396005413 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 388396005414 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 protein...; Region: CSP_CDS; cd04458 388396005415 DNA-binding site [nucleotide binding]; DNA binding site 388396005416 RNA-binding motif; other site 388396005417 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 388396005418 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 388396005419 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 388396005420 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 388396005421 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 388396005422 homodimer interface [polypeptide binding]; other site 388396005423 NADP binding site [chemical binding]; other site 388396005424 substrate binding site [chemical binding]; other site 388396005425 PrkA family serine protein kinase; Provisional; Region: PRK15455 388396005426 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396005427 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 388396005428 Protein of unknown function (DUF444); Region: DUF444; pfam04285 388396005429 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 388396005430 SpoVR family protein; Provisional; Region: PRK11767 388396005431 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 388396005432 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 388396005433 Monomeric isocitrate dehydrogenase; Region: IDH; pfam03971 388396005434 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 388396005435 active site 388396005436 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396005437 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396005438 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396005439 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 388396005440 ferredoxin-NADP reductase; Provisional; Region: PRK10926 388396005441 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 388396005442 FAD binding pocket [chemical binding]; other site 388396005443 FAD binding motif [chemical binding]; other site 388396005444 phosphate binding motif [ion binding]; other site 388396005445 beta-alpha-beta structure motif; other site 388396005446 NAD binding pocket [chemical binding]; other site 388396005447 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 388396005448 Mannosyltransferase putative; Region: Mannosyl_trans3; pfam11051 388396005449 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396005450 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 388396005451 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 388396005452 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 388396005453 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They...; Region: rubredoxin; cd00730 388396005454 iron binding site [ion binding]; other site 388396005455 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 388396005456 GAF domain; Region: GAF; cl00853 388396005457 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...; Region: AAA; cd00009 388396005458 Walker A motif; other site 388396005459 ATP binding site [chemical binding]; other site 388396005460 Walker B motif; other site 388396005461 arginine finger; other site 388396005462 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 388396005463 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 388396005464 Protein of unknown function (DUF489); Region: DUF489; cl01097 388396005465 adenylosuccinate lyase; Provisional; Region: PRK09285 388396005466 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 388396005467 tetramer interface [polypeptide binding]; other site 388396005468 active site 388396005469 Cache domain; Region: Cache_1; pfam02743 388396005470 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396005471 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396005472 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396005473 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 388396005474 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 388396005475 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 388396005476 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 388396005477 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 388396005478 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 388396005479 ATP binding site [chemical binding]; other site 388396005480 Mg++ binding site [ion binding]; other site 388396005481 motif III; other site 388396005482 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 388396005483 nucleotide binding region [chemical binding]; other site 388396005484 ATP-binding site [chemical binding]; other site 388396005485 hypothetical protein; Provisional; Region: PRK10279 388396005486 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 388396005487 active site 388396005488 nucleophile elbow; other site 388396005489 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 388396005490 putative deacylase active site [active] 388396005491 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 388396005492 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 388396005493 active site 388396005494 phosphorylation site [posttranslational modification] 388396005495 intermolecular recognition site; other site 388396005496 dimerization interface [polypeptide binding]; other site 388396005497 Transcriptional regulator; Region: CitT; pfam12431 388396005498 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 388396005499 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 388396005500 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 388396005501 ATP binding site [chemical binding]; other site 388396005502 Mg2+ binding site [ion binding]; other site 388396005503 G-X-G motif; other site 388396005504 formate--tetrahydrofolate ligase; Provisional; Region: PRK13506 388396005505 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 388396005506 Potassium binding sites [ion binding]; other site 388396005507 Cesium cation binding sites [ion binding]; other site 388396005508 YfbU domain; Region: YfbU; cl01137 388396005509 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...; Region: gram_neg_porins; cd00342 388396005510 trimer interface [polypeptide binding]; other site 388396005511 eyelet of channel; other site 388396005512 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 388396005513 S-adenosylmethionine binding site [chemical binding]; other site 388396005514 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-...; Region: EriC; cd01031 388396005515 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 388396005516 Cl- selectivity filter; other site 388396005517 Cl- binding residues [ion binding]; other site 388396005518 pore gating glutamate residue; other site 388396005519 dimer interface [polypeptide binding]; other site 388396005520 H+/Cl- coupling transport residue; other site 388396005521 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 388396005522 putative acyl-acceptor binding pocket; other site 388396005523 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 388396005524 YfcL protein; Region: YfcL; pfam08891 388396005525 Protein of unknown function, DUF462; Region: DUF462; cl01190 388396005526 MgtC family; Region: MgtC; cl12207 388396005527 Predicted membrane protein [Function unknown]; Region: COG2860 388396005528 UPF0126 domain; Region: UPF0126; pfam03458 388396005529 UPF0126 domain; Region: UPF0126; pfam03458 388396005530 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 388396005531 Tetramer interface [polypeptide binding]; other site 388396005532 Active site [active] 388396005533 FMN-binding site [chemical binding]; other site 388396005534 HemK family putative methylases; Region: hemK_fam; TIGR00536 388396005535 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 388396005536 S-adenosylmethionine binding site [chemical binding]; other site 388396005537 Smr domain; Region: Smr; cl02619 388396005538 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 388396005539 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 388396005540 catalytic core [active] 388396005541 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 388396005542 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 388396005543 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 388396005544 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 388396005545 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 388396005546 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 388396005547 substrate binding site [chemical binding]; other site 388396005548 oxyanion hole (OAH) forming residues; other site 388396005549 trimer interface [polypeptide binding]; other site 388396005550 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396005551 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 388396005552 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 388396005553 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 388396005554 dimer interface [polypeptide binding]; other site 388396005555 active site 388396005556 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 388396005557 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 388396005558 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 388396005559 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 388396005560 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 388396005561 VacJ like lipoprotein; Region: VacJ; cl01073 388396005562 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 388396005563 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 388396005564 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 388396005565 binding surface 388396005566 TPR motif; other site 388396005567 Cytochrome C biogenesis protein; Region: CcmH; cl01179 388396005568 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 388396005569 catalytic residues [active] 388396005570 central insert; other site 388396005571 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 388396005572 CcmE; Region: CcmE; cl00994 388396005573 Heme exporter protein D (CcmD); Region: CcmD; cl11475 388396005574 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 388396005575 CcmB protein; Region: CcmB; cl01016 388396005576 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 388396005577 CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH); Region: ABC_CcmA_heme_exporter; cd03231 388396005578 Walker A/P-loop; other site 388396005579 ATP binding site [chemical binding]; other site 388396005580 Q-loop/lid; other site 388396005581 ABC transporter signature motif; other site 388396005582 Walker B; other site 388396005583 D-loop; other site 388396005584 H-loop/switch region; other site 388396005585 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 388396005586 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 388396005587 putative CheA interaction surface; other site 388396005588 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 388396005589 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 388396005590 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...; Region: ParA; cd02042 388396005591 Magnesium ion binding site [ion binding]; other site 388396005592 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 388396005593 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 388396005594 active site 388396005595 phosphorylation site [posttranslational modification] 388396005596 intermolecular recognition site; other site 388396005597 CheB methylesterase; Region: CheB_methylest; pfam01339 388396005598 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 388396005599 putative binding surface; other site 388396005600 active site 388396005601 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 388396005602 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 388396005603 ATP binding site [chemical binding]; other site 388396005604 Mg2+ binding site [ion binding]; other site 388396005605 G-X-G motif; other site 388396005606 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 388396005607 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 388396005608 Response regulator receiver domain; Region: Response_reg; pfam00072 388396005609 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 388396005610 active site 388396005611 phosphorylation site [posttranslational modification] 388396005612 intermolecular recognition site; other site 388396005613 dimerization interface [polypeptide binding]; other site 388396005614 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 388396005615 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 388396005616 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 388396005617 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...; Region: Sigma70_r4; cd06171 388396005618 DNA binding residues [nucleotide binding] 388396005619 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 388396005620 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 388396005621 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 388396005622 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 388396005623 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 388396005624 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 388396005625 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 388396005626 Flagellar protein YcgR; Region: YcgR_2; pfam12945 388396005627 PilZ domain; Region: PilZ; cl01260 388396005628 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 388396005629 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 388396005630 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 388396005631 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 388396005632 FliP family; Region: FliP; cl00593 388396005633 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 388396005634 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 388396005635 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 388396005636 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 388396005637 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 388396005638 Flagellar hook-length control protein FliK; Region: Flg_hook; cl14669 388396005639 Flagellar FliJ protein; Region: FliJ; cl09161 388396005640 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 388396005641 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 388396005642 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 388396005643 Walker A motif/ATP binding site; other site 388396005644 Walker B motif; other site 388396005645 flagellar assembly protein H; Validated; Region: fliH; PRK05687 388396005646 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 388396005647 Flagellar assembly protein FliH; Region: FliH; pfam02108 388396005648 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 388396005649 FliG C-terminal domain; Region: FliG_C; pfam01706 388396005650 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 388396005651 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 388396005652 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 388396005653 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 388396005654 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 388396005655 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 388396005656 active site 388396005657 phosphorylation site [posttranslational modification] 388396005658 intermolecular recognition site; other site 388396005659 dimerization interface [polypeptide binding]; other site 388396005660 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...; Region: AAA; cd00009 388396005661 Walker A motif; other site 388396005662 ATP binding site [chemical binding]; other site 388396005663 Walker B motif; other site 388396005664 arginine finger; other site 388396005665 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 388396005666 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 388396005667 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 388396005668 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 trans-...; Region: HisKA; cd00082 388396005669 dimer interface [polypeptide binding]; other site 388396005670 phosphorylation site [posttranslational modification] 388396005671 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 388396005672 ATP binding site [chemical binding]; other site 388396005673 G-X-G motif; other site 388396005674 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 388396005675 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; cl09944 388396005676 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...; Region: AAA; cd00009 388396005677 Walker A motif; other site 388396005678 ATP binding site [chemical binding]; other site 388396005679 Walker B motif; other site 388396005680 arginine finger; other site 388396005681 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 388396005682 Flagellar protein FliS; Region: FliS; cl00654 388396005683 flagellar capping protein; Validated; Region: fliD; PRK08724 388396005684 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 388396005685 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 388396005686 FlaG protein; Region: FlaG; cl00591 388396005687 flagellin; Reviewed; Region: PRK08869 388396005688 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 388396005689 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 388396005690 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 388396005691 flagellin; Reviewed; Region: PRK08869 388396005692 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 388396005693 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 388396005694 flagellin; Reviewed; Region: PRK08869 388396005695 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 388396005696 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 388396005697 flagellin; Reviewed; Region: PRK08869 388396005698 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 388396005699 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 388396005700 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 388396005701 flagellin; Reviewed; Region: PRK08869 388396005702 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 388396005703 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 388396005704 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 388396005705 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 388396005706 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 388396005707 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08871 388396005708 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 388396005709 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 388396005710 Rod binding protein; Region: Rod-binding; cl01626 388396005711 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 388396005712 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 388396005713 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 388396005714 Flagellar L-ring protein; Region: FlgH; cl00905 388396005715 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 388396005716 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 388396005717 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 388396005718 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 388396005719 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 388396005720 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 388396005721 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 388396005722 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 388396005723 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 388396005724 Flagellar hook capping protein; Region: FlgD; cl04347 388396005725 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 388396005726 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 388396005727 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 388396005728 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 388396005729 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 388396005730 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 388396005731 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; cl12011 388396005732 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; cl00256 388396005733 Response regulator receiver domain; Region: Response_reg; pfam00072 388396005734 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 388396005735 active site 388396005736 phosphorylation site [posttranslational modification] 388396005737 intermolecular recognition site; other site 388396005738 dimerization interface [polypeptide binding]; other site 388396005739 SAF domain; Region: SAF; cl00555 388396005740 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 388396005741 FlgN protein; Region: FlgN; cl09176 388396005742 Protein of unknown function, DUF400; Region: DUF400; cl01141 388396005743 Predicted integral membrane protein [Function unknown]; Region: COG5616 388396005744 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 388396005745 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 388396005746 active site 388396005747 HIGH motif; other site 388396005748 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 388396005749 active site 388396005750 KMSKS motif; other site 388396005751 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...; Region: gram_neg_porins; cd00342 388396005752 trimer interface [polypeptide binding]; other site 388396005753 eyelet of channel; other site 388396005754 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...; Region: gram_neg_porins; cd00342 388396005755 trimer interface [polypeptide binding]; other site 388396005756 eyelet of channel; other site 388396005757 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 388396005758 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 388396005759 nucleotide binding pocket [chemical binding]; other site 388396005760 K-X-D-G motif; other site 388396005761 catalytic site [active] 388396005762 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 388396005763 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 388396005764 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 388396005765 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 388396005766 Dimer interface [polypeptide binding]; other site 388396005767 BRCT sequence motif; other site 388396005768 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 388396005769 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 388396005770 FtsZ protein binding site [polypeptide binding]; other site 388396005771 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 388396005772 cysteine synthases; Region: cysKM; TIGR01136 388396005773 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 388396005774 dimer interface [polypeptide binding]; other site 388396005775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396005776 catalytic residue [active] 388396005777 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 388396005778 dimerization domain swap beta strand [polypeptide binding]; other site 388396005779 regulatory protein interface [polypeptide binding]; other site 388396005780 active site 388396005781 regulatory phosphorylation site [posttranslational modification]; other site 388396005782 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 388396005783 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 388396005784 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 388396005785 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; cl09155 388396005786 PTS_IIA, PTS system, glucose/sucrose 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_glc; cd00210 388396005787 HPr interaction site; other site 388396005788 glycerol kinase (GK) interaction site [polypeptide binding]; other site 388396005789 active site 388396005790 phosphorylation site [posttranslational modification] 388396005791 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 388396005792 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 388396005793 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 388396005794 Protein of unknown function (Duf2374); Region: DUF2374; cl09797 388396005795 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 388396005796 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 388396005797 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 388396005798 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 388396005799 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 oxidation via a membrane-anchored...; Region: MopB_Nitrate-R-NapA-like; cd02754 388396005800 [4Fe-4S] binding site [ion binding]; other site 388396005801 molybdopterin cofactor binding site; other site 388396005802 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 oxidation via a membrane-anchored...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 388396005803 molybdopterin cofactor binding site; other site 388396005804 NapD protein; Region: NapD; cl01163 388396005805 ferredoxin-type protein; Provisional; Region: PRK10194 388396005806 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 388396005807 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 connected by an extended linker. The...; Region: HAMP; cd06225 388396005808 dimerization interface [polypeptide binding]; other site 388396005809 Histidine kinase; Region: HisKA_3; pfam07730 388396005810 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 388396005811 ATP binding site [chemical binding]; other site 388396005812 Mg2+ binding site [ion binding]; other site 388396005813 G-X-G motif; other site 388396005814 transcriptional regulator NarP; Provisional; Region: PRK10403 388396005815 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 388396005816 active site 388396005817 phosphorylation site [posttranslational modification] 388396005818 intermolecular recognition site; other site 388396005819 dimerization interface [polypeptide binding]; other site 388396005820 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...; Region: LuxR_C_like; cd06170 388396005821 DNA binding residues [nucleotide binding] 388396005822 dimerization interface [polypeptide binding]; other site 388396005823 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 388396005824 Uncharacterized conserved protein [Function unknown]; Region: COG4104 388396005825 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 388396005826 putative catalytic residues [active] 388396005827 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 388396005828 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 388396005829 metal binding site [ion binding]; metal-binding site 388396005830 dimer interface [polypeptide binding]; other site 388396005831 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 388396005832 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 388396005833 lipoprotein; Provisional; Region: PRK11679 388396005834 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 388396005835 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 388396005836 dihydrodipicolinate synthase; Region: dapA; TIGR00674 388396005837 dimer interface [polypeptide binding]; other site 388396005838 active site 388396005839 catalytic residue [active] 388396005840 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 388396005841 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 388396005842 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 388396005843 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...; Region: PRX_BCP; cd03017 388396005844 catalytic triad [active] 388396005845 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 388396005846 Domain of unknown function DUF20; Region: UPF0118; cl00465 388396005847 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 two-...; Region: SirA_YedF_YeeD; cl00436 388396005848 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 388396005849 Peptidase family M48; Region: Peptidase_M48; cl12018 388396005850 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 388396005851 binding surface 388396005852 TPR motif; other site 388396005853 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 388396005854 catalytic residues [active] 388396005855 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 388396005856 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; cl01278 388396005857 Sulfate transporter family; Region: Sulfate_transp; cl00967 388396005858 Permease family; Region: Xan_ur_permease; pfam00860 388396005859 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 388396005860 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 388396005861 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...; Region: PurM; cd02196 388396005862 dimerization interface [polypeptide binding]; other site 388396005863 putative ATP binding site [chemical binding]; other site 388396005864 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 388396005865 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 388396005866 active site 388396005867 substrate binding site [chemical binding]; other site 388396005868 cosubstrate binding site; other site 388396005869 catalytic site [active] 388396005870 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 388396005871 putative active site [active] 388396005872 putative dimer interface [polypeptide binding]; other site 388396005873 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 388396005874 dimer interface [polypeptide binding]; other site 388396005875 active site 388396005876 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 388396005877 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 388396005878 active site 388396005879 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 388396005880 TIGR03503 family protein; Region: TIGR03503 388396005881 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 388396005882 Proteobacterial; Region: dnaQ_proteo; TIGR01406 388396005883 active site 388396005884 substrate binding site [chemical binding]; other site 388396005885 catalytic site [active] 388396005886 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 388396005887 RNA/DNA hybrid binding site [nucleotide binding]; other site 388396005888 active site 388396005889 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; cl12011 388396005890 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 388396005891 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 388396005892 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 catalyze...; Region: LT_GEWL; cd00254 388396005893 N-acetyl-D-glucosamine binding site [chemical binding]; other site 388396005894 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 388396005895 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 388396005896 putative peptidoglycan binding site; other site 388396005897 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 388396005898 putative peptidoglycan binding site; other site 388396005899 Yip1 domain; Region: Yip1; cl12048 388396005900 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 388396005901 putative catalytic site [active] 388396005902 putative phosphate binding site [ion binding]; other site 388396005903 putative metal binding site [ion binding]; other site 388396005904 Nitrogen regulatory protein P-II; Region: P-II; cl00412 388396005905 Cytochrome c; Region: Cytochrom_C; cl11414 388396005906 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 388396005907 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 388396005908 Ligand Binding Site [chemical binding]; other site 388396005909 TilS substrate binding domain; Region: TilS; pfam09179 388396005910 B3/4 domain; Region: B3_4; cl11458 388396005911 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 388396005912 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 388396005913 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 388396005914 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 388396005915 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...; Region: DnaE_OBF; cd04485 388396005916 generic binding surface II; other site 388396005917 generic binding surface I; other site 388396005918 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 388396005919 RNA/DNA hybrid binding site [nucleotide binding]; other site 388396005920 active site 388396005921 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 388396005922 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 388396005923 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 388396005924 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...; Region: LbH_UDP-GlcNAc_AT; cd03351 388396005925 active site 388396005926 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 388396005927 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 388396005928 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 388396005929 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-2,3-...; Region: LbH_LpxD; cd03352 388396005930 trimer interface [polypeptide binding]; other site 388396005931 active site 388396005932 UDP-GlcNAc binding site [chemical binding]; other site 388396005933 lipid binding site [chemical binding]; lipid-binding site 388396005934 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 388396005935 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 388396005936 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 388396005937 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 388396005938 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 388396005939 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 388396005940 Surface antigen; Region: Bac_surface_Ag; cl03097 388396005941 zinc metallopeptidase RseP; Provisional; Region: PRK10779 388396005942 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 388396005943 active site 388396005944 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...; Region: PDZ_metalloprotease; cd00989 388396005945 protein binding site [polypeptide binding]; other site 388396005946 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...; Region: PDZ_metalloprotease; cd00989 388396005947 protein binding site [polypeptide binding]; other site 388396005948 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 388396005949 putative substrate binding region [chemical binding]; other site 388396005950 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 388396005951 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 388396005952 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 388396005953 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 388396005954 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 388396005955 catalytic residue [active] 388396005956 putative FPP diphosphate binding site; other site 388396005957 putative FPP binding hydrophobic cleft; other site 388396005958 dimer interface [polypeptide binding]; other site 388396005959 putative IPP diphosphate binding site; other site 388396005960 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 round of...; Region: RRF; cd00520 388396005961 hinge region; other site 388396005962 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 388396005963 putative nucleotide binding site [chemical binding]; other site 388396005964 uridine monophosphate binding site [chemical binding]; other site 388396005965 homohexameric interface [polypeptide binding]; other site 388396005966 elongation factor Ts; Provisional; Region: tsf; PRK09377 388396005967 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 388396005968 Elongation factor TS; Region: EF_TS; pfam00889 388396005969 Elongation factor TS; Region: EF_TS; pfam00889 388396005970 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 388396005971 rRNA interaction site [nucleotide binding]; other site 388396005972 S8 interaction site; other site 388396005973 putative laminin-1 binding site; other site 388396005974 methionine aminopeptidase; Reviewed; Region: PRK07281 388396005975 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 388396005976 active site 388396005977 PII uridylyl-transferase; Provisional; Region: PRK05007 388396005978 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 388396005979 metal binding triad; other site 388396005980 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 388396005981 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 388396005982 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 388396005983 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 388396005984 Protein of unknown function (DUF3461); Region: DUF3461; cl10125 388396005985 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 388396005986 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...; Region: metallo-dependent_hydrolases; cl00281 388396005987 Protein export membrane protein; Region: SecD_SecF; cl14618 388396005988 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 388396005989 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 388396005990 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 388396005991 Protein export membrane protein; Region: SecD_SecF; cl14618 388396005992 Preprotein translocase subunit; Region: YajC; cl00806 388396005993 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 388396005994 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 388396005995 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 388396005996 FOG: CBS domain [General function prediction only]; Region: COG0517 388396005997 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-...; Region: CBS_pair; cl10010 388396005998 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 388396005999 tetramer interface [polypeptide binding]; other site 388396006000 active site 388396006001 Mg2+/Mn2+ binding site [ion binding]; other site 388396006002 malate synthase A; Region: malate_syn_A; TIGR01344 388396006003 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 388396006004 active site 388396006005 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 388396006006 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396006007 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 388396006008 dimerization interface [polypeptide binding]; other site 388396006009 peroxidase; Provisional; Region: PRK15000 388396006010 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...; Region: PRX_Typ2cys; cd03015 388396006011 dimer interface [polypeptide binding]; other site 388396006012 decamer (pentamer of dimers) interface [polypeptide binding]; other site 388396006013 catalytic triad [active] 388396006014 peroxidatic and resolving cysteines [active] 388396006015 CutC family; Region: CutC; cl01218 388396006016 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 388396006017 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396006018 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396006019 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 388396006020 substrate binding pocket [chemical binding]; other site 388396006021 dimerization interface [polypeptide binding]; other site 388396006022 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396006023 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396006024 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 388396006025 dimerization interface [polypeptide binding]; other site 388396006026 transcriptional regulator PhoU; Provisional; Region: PRK11115 388396006027 PhoU domain; Region: PhoU; pfam01895 388396006028 PhoU domain; Region: PhoU; pfam01895 388396006029 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 388396006030 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 388396006031 Walker A/P-loop; other site 388396006032 ATP binding site [chemical binding]; other site 388396006033 Q-loop/lid; other site 388396006034 ABC transporter signature motif; other site 388396006035 Walker B; other site 388396006036 D-loop; other site 388396006037 H-loop/switch region; other site 388396006038 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 388396006039 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396006040 dimer interface [polypeptide binding]; other site 388396006041 conserved gate region; other site 388396006042 putative PBP binding loops; other site 388396006043 ABC-ATPase subunit interface; other site 388396006044 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 388396006045 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396006046 dimer interface [polypeptide binding]; other site 388396006047 conserved gate region; other site 388396006048 putative PBP binding loops; other site 388396006049 ABC-ATPase subunit interface; other site 388396006050 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 388396006051 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 388396006052 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 388396006053 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 388396006054 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 trans-...; Region: HisKA; cd00082 388396006055 dimer interface [polypeptide binding]; other site 388396006056 phosphorylation site [posttranslational modification] 388396006057 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 388396006058 ATP binding site [chemical binding]; other site 388396006059 Mg2+ binding site [ion binding]; other site 388396006060 G-X-G motif; other site 388396006061 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 388396006062 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 388396006063 active site 388396006064 phosphorylation site [posttranslational modification] 388396006065 intermolecular recognition site; other site 388396006066 dimerization interface [polypeptide binding]; other site 388396006067 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...; Region: trans_reg_C; cd00383 388396006068 DNA binding site [nucleotide binding] 388396006069 Putative exonuclease, RdgC; Region: RdgC; cl01122 388396006070 putative protease; Provisional; Region: PRK15452 388396006071 Peptidase family U32; Region: Peptidase_U32; cl03113 388396006072 Domain of unknown function (DUF3541); Region: DUF3541; pfam12060 388396006073 chaperone protein DnaJ; Provisional; Region: PRK10767 388396006074 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...; Region: DnaJ; cd06257 388396006075 HSP70 interaction site [polypeptide binding]; other site 388396006076 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 388396006077 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 388396006078 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 388396006079 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 388396006080 dimer interface [polypeptide binding]; other site 388396006081 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 388396006082 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 388396006083 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 388396006084 recombination and repair protein; Provisional; Region: PRK10869 388396006085 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 388396006086 Walker A/P-loop; other site 388396006087 ATP binding site [chemical binding]; other site 388396006088 Q-loop/lid; other site 388396006089 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 388396006090 Q-loop/lid; other site 388396006091 ABC transporter signature motif; other site 388396006092 Walker B; other site 388396006093 D-loop; other site 388396006094 H-loop/switch region; other site 388396006095 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 388396006096 Uncharacterised protein family (UPF0125); Region: UPF0125; cl01096 388396006097 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 388396006098 putative coenzyme Q binding site [chemical binding]; other site 388396006099 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 388396006100 SmpB-tmRNA interface; other site 388396006101 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 388396006102 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 388396006103 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 388396006104 ATP binding site [chemical binding]; other site 388396006105 putative Mg++ binding site [ion binding]; other site 388396006106 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 388396006107 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 388396006108 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 388396006109 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 388396006110 HsdM N-terminal domain; Region: HsdM_N; pfam12161 388396006111 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 388396006112 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; cl12011 388396006113 HipA N-terminal domain; Region: couple_hipA; TIGR03071 388396006114 HipA-like N-terminal domain; Region: HipA_N; pfam07805 388396006115 HipA-like C-terminal domain; Region: HipA_C; pfam07804 388396006116 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 388396006117 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 388396006118 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 388396006119 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396006120 dimer interface [polypeptide binding]; other site 388396006121 conserved gate region; other site 388396006122 putative PBP binding loops; other site 388396006123 ABC-ATPase subunit interface; other site 388396006124 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 388396006125 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396006126 dimer interface [polypeptide binding]; other site 388396006127 conserved gate region; other site 388396006128 putative PBP binding loops; other site 388396006129 ABC-ATPase subunit interface; other site 388396006130 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 388396006131 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 388396006132 Walker A/P-loop; other site 388396006133 ATP binding site [chemical binding]; other site 388396006134 Q-loop/lid; other site 388396006135 ABC transporter signature motif; other site 388396006136 Walker B; other site 388396006137 D-loop; other site 388396006138 H-loop/switch region; other site 388396006139 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 388396006140 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 388396006141 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 388396006142 CD and pullulan-degrading enzymes N-terminus domain. Members of this subgroup include: Cyclomaltodextrinase (CDase), maltogenic amylase, and neopullulanase all of which are capable of hydrolyzing all or two of the following three types of substrates:...; Region: CD_pullulan_degrading_enzymes_N_term; cd02857 388396006143 homodimer; other site 388396006144 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 388396006145 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 388396006146 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 388396006147 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396006148 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396006149 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 388396006150 dimerization interface [polypeptide binding]; other site 388396006151 Divalent cation transporter; Region: MgtE; cl00786 388396006152 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 388396006153 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 388396006154 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 388396006155 tetramer interface [polypeptide binding]; other site 388396006156 heme binding pocket [chemical binding]; other site 388396006157 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 388396006158 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 388396006159 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 388396006160 E-class dimer interface [polypeptide binding]; other site 388396006161 P-class dimer interface [polypeptide binding]; other site 388396006162 active site 388396006163 Cu2+ binding site [ion binding]; other site 388396006164 Zn2+ binding site [ion binding]; other site 388396006165 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 388396006166 dimer interface [polypeptide binding]; other site 388396006167 pyridoxal binding site [chemical binding]; other site 388396006168 ATP binding site [chemical binding]; other site 388396006169 lysine decarboxylase CadA; Provisional; Region: PRK15400 388396006170 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 388396006171 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and...; Region: Orn_deC_like; cd00615 388396006172 homodimer interface [polypeptide binding]; other site 388396006173 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396006174 catalytic residue [active] 388396006175 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 388396006176 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 388396006177 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 388396006178 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 388396006179 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...; Region: trans_reg_C; cd00383 388396006180 DNA binding site [nucleotide binding] 388396006181 YeeE/YedE family (DUF395); Region: DUF395; cl01018 388396006182 YeeE/YedE family (DUF395); Region: DUF395; cl01018 388396006183 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 388396006184 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396006185 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 388396006186 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 rhodanese-...; Region: RHOD_Pyr_redox; cd01524 388396006187 active site residue [active] 388396006188 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 388396006189 proposed active site lysine [active] 388396006190 conserved cys residue [active] 388396006191 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 388396006192 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 388396006193 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 388396006194 Nucleoside recognition; Region: Gate; cl00486 388396006195 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 388396006196 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 388396006197 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 388396006198 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 388396006199 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 388396006200 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 388396006201 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...; Region: Sigma70_r4; cl01055 388396006202 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 388396006203 putative peptidoglycan binding site; other site 388396006204 Peptidase family M23; Region: Peptidase_M23; pfam01551 388396006205 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; cl12011 388396006206 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 388396006207 Survival protein SurE; Region: SurE; cl00448 388396006208 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 388396006209 PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_EcTruD; cd02575 388396006210 Permutation of conserved domain; other site 388396006211 active site 388396006212 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 388396006213 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...; Region: MECDP_synthase; cd00554 388396006214 homotrimer interaction site [polypeptide binding]; other site 388396006215 zinc binding site [ion binding]; other site 388396006216 CDP-binding sites; other site 388396006217 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 388396006218 substrate binding site [chemical binding]; other site 388396006219 dimer interface [polypeptide binding]; other site 388396006220 Septum formation initiator; Region: DivIC; cl11433 388396006221 enolase; Provisional; Region: eno; PRK00077 388396006222 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 388396006223 dimer interface [polypeptide binding]; other site 388396006224 metal binding site [ion binding]; metal-binding site 388396006225 substrate binding pocket [chemical binding]; other site 388396006226 CTP synthetase; Validated; Region: pyrG; PRK05380 388396006227 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...; Region: CTGs; cd03113 388396006228 Catalytic site [active] 388396006229 Active site [active] 388396006230 UTP binding site [chemical binding]; other site 388396006231 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 388396006232 active site 388396006233 putative oxyanion hole; other site 388396006234 catalytic triad [active] 388396006235 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 388396006236 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 388396006237 flagellin; Reviewed; Region: PRK08869 388396006238 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 388396006239 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 388396006240 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 388396006241 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 388396006242 synthetase active site [active] 388396006243 NTP binding site [chemical binding]; other site 388396006244 metal binding site [ion binding]; metal-binding site 388396006245 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...; Region: TGS_RelA_SpoT; cd01668 388396006246 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 388396006247 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 388396006248 TRAM domain; Region: TRAM; cl01282 388396006249 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 388396006250 S-adenosylmethionine binding site [chemical binding]; other site 388396006251 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 388396006252 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 388396006253 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396006254 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 trans-...; Region: HisKA; cd00082 388396006255 dimer interface [polypeptide binding]; other site 388396006256 phosphorylation site [posttranslational modification] 388396006257 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 388396006258 ATP binding site [chemical binding]; other site 388396006259 Mg2+ binding site [ion binding]; other site 388396006260 G-X-G motif; other site 388396006261 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 388396006262 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 388396006263 active site 388396006264 phosphorylation site [posttranslational modification] 388396006265 intermolecular recognition site; other site 388396006266 dimerization interface [polypeptide binding]; other site 388396006267 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 388396006268 putative binding surface; other site 388396006269 active site 388396006270 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 388396006271 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 the...; Region: PNPsynthase; cd00003 388396006272 active site 388396006273 hydrophilic channel; other site 388396006274 dimerization interface [polypeptide binding]; other site 388396006275 catalytic residues [active] 388396006276 active site lid [active] 388396006277 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 388396006278 Recombination protein O N terminal; Region: RecO_N; pfam11967 388396006279 Recombination protein O C terminal; Region: RecO_C; pfam02565 388396006280 GTPase Era; Reviewed; Region: era; PRK00089 388396006281 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 388396006282 G1 box; other site 388396006283 GTP/Mg2+ binding site [chemical binding]; other site 388396006284 Switch I region; other site 388396006285 G2 box; other site 388396006286 Switch II region; other site 388396006287 G3 box; other site 388396006288 G4 box; other site 388396006289 G5 box; other site 388396006290 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 388396006291 ribonuclease III; Reviewed; Region: rnc; PRK00102 388396006292 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 post-...; Region: RIBOc; cd00593 388396006293 dimerization interface [polypeptide binding]; other site 388396006294 active site 388396006295 metal binding site [ion binding]; metal-binding site 388396006296 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...; Region: DSRM; cd00048 388396006297 dsRNA binding site [nucleotide binding]; other site 388396006298 signal peptidase I; Provisional; Region: PRK10861 388396006299 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 388396006300 Catalytic site [active] 388396006301 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 388396006302 GTP-binding protein LepA; Provisional; Region: PRK05433 388396006303 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 388396006304 G1 box; other site 388396006305 putative GEF interaction site [polypeptide binding]; other site 388396006306 GTP/Mg2+ binding site [chemical binding]; other site 388396006307 Switch I region; other site 388396006308 G2 box; other site 388396006309 G3 box; other site 388396006310 Switch II region; other site 388396006311 G4 box; other site 388396006312 G5 box; other site 388396006313 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-...; Region: lepA_II; cd03699 388396006314 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 388396006315 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 388396006316 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 388396006317 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 388396006318 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 388396006319 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 388396006320 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 388396006321 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 388396006322 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...; Region: Sigma70_r4; cd06171 388396006323 DNA binding residues [nucleotide binding] 388396006324 L-aspartate oxidase; Provisional; Region: PRK09077 388396006325 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396006326 domain; Region: Succ_DH_flav_C; pfam02910 388396006327 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 388396006328 putative global regulator; Reviewed; Region: PRK09559 388396006329 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 388396006330 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 388396006331 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 388396006332 putative deacylase active site [active] 388396006333 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 388396006334 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396006335 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 388396006336 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396006337 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 388396006338 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 388396006339 Cell division protein ZapA; Region: ZapA; cl01146 388396006340 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 388396006341 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 388396006342 tetramer (dimer of dimers) interface [polypeptide binding]; other site 388396006343 active site 388396006344 dimer interface [polypeptide binding]; other site 388396006345 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 388396006346 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396006347 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 388396006348 L-serine binding site [chemical binding]; other site 388396006349 ACT domain interface; other site 388396006350 Protein of unknown function (DUF541); Region: SIMPL; cl01077 388396006351 mechanosensitive channel MscS; Provisional; Region: PRK10334 388396006352 Conserved TM helix; Region: TM_helix; pfam05552 388396006353 Mechanosensitive ion channel; Region: MS_channel; pfam00924 388396006354 Protein of unknown function (DUF328); Region: DUF328; cl01143 388396006355 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 388396006356 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 388396006357 Uncharacterized conserved protein [Function unknown]; Region: COG3945 388396006358 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 388396006359 endonuclease IV; Provisional; Region: PRK01060 388396006360 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 D-arabino-6-...; Region: AP2Ec; cd00019 388396006361 AP (apurinic/apyrimidinic) site pocket; other site 388396006362 DNA interaction; other site 388396006363 Metal-binding active site; metal-binding site 388396006364 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 388396006365 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 388396006366 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)...; Region: Trp-synth-beta_II; cl00342 388396006367 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 388396006368 catalytic residue [active] 388396006369 homoserine kinase; Provisional; Region: PRK01212 388396006370 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 388396006371 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 388396006372 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 388396006373 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 AKI-...; Region: AAK_AK-HSDH; cd04257 388396006374 putative catalytic residues [active] 388396006375 putative nucleotide binding site [chemical binding]; other site 388396006376 putative aspartate binding site [chemical binding]; other site 388396006377 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 388396006378 dimer interface [polypeptide binding]; other site 388396006379 putative threonine allosteric regulatory site; other site 388396006380 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 388396006381 putative threonine allosteric regulatory site; other site 388396006382 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396006383 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 388396006384 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 388396006385 two-component response regulator; Provisional; Region: PRK11173 388396006386 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 388396006387 active site 388396006388 phosphorylation site [posttranslational modification] 388396006389 intermolecular recognition site; other site 388396006390 dimerization interface [polypeptide binding]; other site 388396006391 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...; Region: trans_reg_C; cd00383 388396006392 DNA binding site [nucleotide binding] 388396006393 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 388396006394 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 388396006395 putative active site [active] 388396006396 heme pocket [chemical binding]; other site 388396006397 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 trans-...; Region: HisKA; cl00080 388396006398 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 388396006399 ATP binding site [chemical binding]; other site 388396006400 Mg2+ binding site [ion binding]; other site 388396006401 G-X-G motif; other site 388396006402 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 388396006403 active site 388396006404 phosphorylation site [posttranslational modification] 388396006405 intermolecular recognition site; other site 388396006406 dimerization interface [polypeptide binding]; other site 388396006407 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 388396006408 radical SAM protein, TIGR01212 family; Region: TIGR01212 388396006409 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 388396006410 FeS/SAM binding site; other site 388396006411 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 388396006412 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 N-...; Region: GltS; cd00713 388396006413 active site 388396006414 dimer interface [polypeptide binding]; other site 388396006415 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 388396006416 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...; Region: GltS_FMN; cd02808 388396006417 active site 388396006418 FMN binding site [chemical binding]; other site 388396006419 substrate binding site [chemical binding]; other site 388396006420 3Fe-4S cluster binding site [ion binding]; other site 388396006421 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 388396006422 domain interface; other site 388396006423 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 388396006424 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396006425 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 388396006426 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 388396006427 CobD/Cbib protein; Region: CobD_Cbib; cl00561 388396006428 hypothetical protein; Provisional; Region: PRK10578 388396006429 UPF0126 domain; Region: UPF0126; pfam03458 388396006430 UPF0126 domain; Region: UPF0126; pfam03458 388396006431 putative peptidase; Provisional; Region: PRK11649 388396006432 Peptidase family M23; Region: Peptidase_M23; pfam01551 388396006433 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 388396006434 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 388396006435 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2...; Region: Biotinyl_lipoyl_domains; cl11404 388396006436 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 388396006437 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 388396006438 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 388396006439 inhibitor-cofactor binding pocket; inhibition site 388396006440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396006441 catalytic residue [active] 388396006442 Domain of unknown function DUF20; Region: UPF0118; cl00465 388396006443 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 388396006444 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 388396006445 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 388396006446 S-adenosylmethionine binding site [chemical binding]; other site 388396006447 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 388396006448 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 connected by an extended linker. The...; Region: HAMP; cd06225 388396006449 dimerization interface [polypeptide binding]; other site 388396006450 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 trans-...; Region: HisKA; cd00082 388396006451 dimer interface [polypeptide binding]; other site 388396006452 phosphorylation site [posttranslational modification] 388396006453 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 388396006454 ATP binding site [chemical binding]; other site 388396006455 Mg2+ binding site [ion binding]; other site 388396006456 G-X-G motif; other site 388396006457 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 388396006458 Response regulator receiver domain; Region: Response_reg; pfam00072 388396006459 active site 388396006460 phosphorylation site [posttranslational modification] 388396006461 intermolecular recognition site; other site 388396006462 dimerization interface [polypeptide binding]; other site 388396006463 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 388396006464 substrate binding site [chemical binding]; other site 388396006465 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 388396006466 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 388396006467 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396006468 dimer interface [polypeptide binding]; other site 388396006469 conserved gate region; other site 388396006470 putative PBP binding loops; other site 388396006471 ABC-ATPase subunit interface; other site 388396006472 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396006473 dimer interface [polypeptide binding]; other site 388396006474 conserved gate region; other site 388396006475 putative PBP binding loops; other site 388396006476 ABC-ATPase subunit interface; other site 388396006477 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 388396006478 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 388396006479 Walker A/P-loop; other site 388396006480 ATP binding site [chemical binding]; other site 388396006481 Q-loop/lid; other site 388396006482 ABC transporter signature motif; other site 388396006483 Walker B; other site 388396006484 D-loop; other site 388396006485 H-loop/switch region; other site 388396006486 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 388396006487 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 388396006488 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 388396006489 Walker A/P-loop; other site 388396006490 ATP binding site [chemical binding]; other site 388396006491 Q-loop/lid; other site 388396006492 ABC transporter signature motif; other site 388396006493 Walker B; other site 388396006494 D-loop; other site 388396006495 H-loop/switch region; other site 388396006496 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 388396006497 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 388396006498 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 388396006499 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 388396006500 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 388396006501 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 388396006502 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); Region: GH20_chitobiase-like; cd06563 388396006503 active site 388396006504 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 388396006505 Putative carbohydrate binding domain; Region: CBM_X; pfam06204 388396006506 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 388396006507 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 388396006508 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 388396006509 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a...; Region: PGM_like2; cd05800 388396006510 active site 388396006511 substrate binding site [chemical binding]; other site 388396006512 metal binding site [ion binding]; metal-binding site 388396006513 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 388396006514 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 388396006515 Walker A/P-loop; other site 388396006516 ATP binding site [chemical binding]; other site 388396006517 Q-loop/lid; other site 388396006518 ABC transporter signature motif; other site 388396006519 Walker B; other site 388396006520 D-loop; other site 388396006521 H-loop/switch region; other site 388396006522 TOBE domain; Region: TOBE_2; cl01440 388396006523 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396006524 dimer interface [polypeptide binding]; other site 388396006525 conserved gate region; other site 388396006526 putative PBP binding loops; other site 388396006527 ABC-ATPase subunit interface; other site 388396006528 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 388396006529 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 388396006530 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 388396006531 Nitrogen regulatory protein P-II; Region: P-II; cl00412 388396006532 Uncharacterised protein family (UPF0231); Region: UPF0231; cl11474 388396006533 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 388396006534 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 388396006535 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; cl09110 388396006536 Glycerate kinase family; Region: Gly_kinase; cl00841 388396006537 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 388396006538 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...; Region: AcnB_Swivel; cd01576 388396006539 substrate binding site [chemical binding]; other site 388396006540 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 388396006541 substrate binding site [chemical binding]; other site 388396006542 ligand binding site [chemical binding]; other site 388396006543 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 388396006544 nucleophile elbow; other site 388396006545 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 388396006546 Surface antigen; Region: Bac_surface_Ag; cl03097 388396006547 Cache domain; Region: Cache_2; pfam08269 388396006548 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396006549 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396006550 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 388396006551 Transglycosylase; Region: Transgly; cl07896 388396006552 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 388396006553 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 388396006554 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 388396006555 ATP binding site [chemical binding]; other site 388396006556 putative Mg++ binding site [ion binding]; other site 388396006557 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 388396006558 nucleotide binding region [chemical binding]; other site 388396006559 ATP-binding site [chemical binding]; other site 388396006560 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 388396006561 Sugar fermentation stimulation protein; Region: SfsA; cl00647 388396006562 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 388396006563 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 388396006564 active site 388396006565 HIGH motif; other site 388396006566 nucleotide binding site [chemical binding]; other site 388396006567 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 388396006568 KMSKS motif; other site 388396006569 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 388396006570 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 388396006571 active site 388396006572 NTP binding site [chemical binding]; other site 388396006573 metal binding triad [ion binding]; metal-binding site 388396006574 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 388396006575 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 388396006576 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 388396006577 catalytic center binding site [active] 388396006578 ATP binding site [chemical binding]; other site 388396006579 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 388396006580 oligomerization interface [polypeptide binding]; other site 388396006581 active site 388396006582 metal binding site [ion binding]; metal-binding site 388396006583 pantoate--beta-alanine ligase; Region: panC; TIGR00018 388396006584 Pantoate-beta-alanine ligase; Region: PanC; cd00560 388396006585 active site 388396006586 ATP-binding site [chemical binding]; other site 388396006587 pantoate-binding site; other site 388396006588 HXXH motif; other site 388396006589 ABC-2 type transporter; Region: ABC2_membrane; cl11417 388396006590 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 388396006591 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396006592 Walker A/P-loop; other site 388396006593 ATP binding site [chemical binding]; other site 388396006594 Q-loop/lid; other site 388396006595 ABC transporter signature motif; other site 388396006596 Walker B; other site 388396006597 D-loop; other site 388396006598 H-loop/switch region; other site 388396006599 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 388396006600 Sulfate transporter family; Region: Sulfate_transp; cl00967 388396006601 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 388396006602 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 388396006603 active site clefts [active] 388396006604 zinc binding site [ion binding]; other site 388396006605 dimer interface [polypeptide binding]; other site 388396006606 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 388396006607 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 388396006608 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 388396006609 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396006610 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 388396006611 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396006612 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 388396006613 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 388396006614 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 388396006615 E3 interaction surface; other site 388396006616 lipoyl attachment site [posttranslational modification]; other site 388396006617 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 388396006618 E3 interaction surface; other site 388396006619 lipoyl attachment site [posttranslational modification]; other site 388396006620 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 388396006621 E3 interaction surface; other site 388396006622 lipoyl attachment site [posttranslational modification]; other site 388396006623 e3 binding domain; Region: E3_binding; pfam02817 388396006624 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 388396006625 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 388396006626 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 388396006627 dimer interface [polypeptide binding]; other site 388396006628 TPP-binding site [chemical binding]; other site 388396006629 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 388396006630 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 388396006631 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 388396006632 DNA-binding site [nucleotide binding]; DNA binding site 388396006633 FCD domain; Region: FCD; cl11656 388396006634 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 388396006635 substrate binding site [chemical binding]; other site 388396006636 amidase catalytic site [active] 388396006637 Zn binding residues [ion binding]; other site 388396006638 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 388396006639 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 5-...; Region: QPRTase; cd01572 388396006640 dimerization interface [polypeptide binding]; other site 388396006641 active site 388396006642 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 388396006643 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 388396006644 Pilin (bacterial filament); Region: Pilin; pfam00114 388396006645 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 388396006646 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 388396006647 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 388396006648 Walker A motif; other site 388396006649 ATP binding site [chemical binding]; other site 388396006650 Walker B motif; other site 388396006651 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 388396006652 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 388396006653 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 388396006654 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 388396006655 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 388396006656 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 388396006657 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 388396006658 CoA-binding site [chemical binding]; other site 388396006659 ATP-binding [chemical binding]; other site 388396006660 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 388396006661 Domain of unknown function (DUF329); Region: DUF329; cl01144 388396006662 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 388396006663 active site 388396006664 8-oxo-dGMP binding site [chemical binding]; other site 388396006665 nudix motif; other site 388396006666 metal binding site [ion binding]; metal-binding site 388396006667 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 388396006668 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; cl14882 388396006669 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 388396006670 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 388396006671 nucleotide binding region [chemical binding]; other site 388396006672 ATP-binding site [chemical binding]; other site 388396006673 hypothetical protein; Provisional; Region: PRK02250 388396006674 SEC-C motif; Region: SEC-C; cl12132 388396006675 Protein of unknown function (DUF721); Region: DUF721; cl02324 388396006676 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 388396006677 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 388396006678 cell division protein FtsZ; Region: ftsZ; TIGR00065 388396006679 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...; Region: FtsZ_type1; cd02201 388396006680 nucleotide binding site [chemical binding]; other site 388396006681 SulA interaction site; other site 388396006682 cell division protein FtsZ; Validated; Region: PRK09330 388396006683 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 388396006684 Cell division protein FtsA; Region: FtsA; cl11496 388396006685 Cell division protein FtsA; Region: FtsA; cl11496 388396006686 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 388396006687 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 388396006688 Cell division protein FtsQ; Region: FtsQ; pfam03799 388396006689 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 388396006690 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 388396006691 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 388396006692 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 388396006693 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 388396006694 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...; Region: GT1_MurG; cd03785 388396006695 active site 388396006696 homodimer interface [polypeptide binding]; other site 388396006697 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 388396006698 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04663 388396006699 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 388396006700 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 388396006701 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 388396006702 Mg++ binding site [ion binding]; other site 388396006703 putative catalytic motif [active] 388396006704 putative substrate binding site [chemical binding]; other site 388396006705 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 388396006706 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 388396006707 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 388396006708 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 388396006709 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 388396006710 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 388396006711 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 388396006712 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 388396006713 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 388396006714 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 388396006715 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 388396006716 Septum formation initiator; Region: DivIC; cl11433 388396006717 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 388396006718 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; cl12011 388396006719 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 388396006720 Predicted methyltransferases [General function prediction only]; Region: COG0313 388396006721 LppC putative lipoprotein; Region: LppC; pfam04348 388396006722 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 388396006723 putative ligand binding site [chemical binding]; other site 388396006724 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 388396006725 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 388396006726 dimer interface [polypeptide binding]; other site 388396006727 active site 388396006728 outer membrane lipoprotein; Provisional; Region: PRK11023 388396006729 BON domain; Region: BON; cl02771 388396006730 BON domain; Region: BON; cl02771 388396006731 Stringent starvation protein B; Region: SspB; cl01120 388396006732 stringent starvation protein A; Provisional; Region: sspA; PRK09481 388396006733 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 388396006734 C-terminal domain interface [polypeptide binding]; other site 388396006735 putative GSH binding site (G-site) [chemical binding]; other site 388396006736 dimer interface [polypeptide binding]; other site 388396006737 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_C_SspA; cd03186 388396006738 dimer interface [polypeptide binding]; other site 388396006739 N-terminal domain interface [polypeptide binding]; other site 388396006740 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 388396006741 cytochrome b; Provisional; Region: CYTB; MTH00145 388396006742 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 388396006743 Qi binding site; other site 388396006744 intrachain domain interface; other site 388396006745 interchain domain interface [polypeptide binding]; other site 388396006746 heme bH binding site [chemical binding]; other site 388396006747 heme bL binding site [chemical binding]; other site 388396006748 Qo binding site; other site 388396006749 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 388396006750 interchain domain interface [polypeptide binding]; other site 388396006751 intrachain domain interface; other site 388396006752 Qi binding site; other site 388396006753 Qo binding site; other site 388396006754 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 388396006755 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 388396006756 [2Fe-2S] cluster binding site [ion binding]; other site 388396006757 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 388396006758 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 388396006759 23S rRNA interface [nucleotide binding]; other site 388396006760 L3 interface [polypeptide binding]; other site 388396006761 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 388396006762 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 388396006763 serine endoprotease; Provisional; Region: PRK10942 388396006764 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 388396006765 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 C-...; Region: PDZ_serine_protease; cd00987 388396006766 protein binding site [polypeptide binding]; other site 388396006767 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 C-...; Region: PDZ_serine_protease; cd00987 388396006768 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 388396006769 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 388396006770 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 C-...; Region: PDZ_serine_protease; cd00987 388396006771 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 388396006772 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 in...; Region: TOP4c; cd00187 388396006773 CAP-like domain; other site 388396006774 Active site [active] 388396006775 primary dimer interface [polypeptide binding]; other site 388396006776 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 388396006777 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 388396006778 ATP binding site [chemical binding]; other site 388396006779 Mg2+ binding site [ion binding]; other site 388396006780 G-X-G motif; other site 388396006781 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 388396006782 anchoring element; other site 388396006783 dimer interface [polypeptide binding]; other site 388396006784 ATP binding site [chemical binding]; other site 388396006785 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both...; Region: TOPRIM_TopoIIA_like; cd01030 388396006786 active site 388396006787 putative metal-binding site [ion binding]; other site 388396006788 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 388396006789 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 388396006790 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 388396006791 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 388396006792 active site 388396006793 metal binding site [ion binding]; metal-binding site 388396006794 hexamer interface [polypeptide binding]; other site 388396006795 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 388396006796 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 388396006797 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...; Region: ADPRase_NUDT5; cd03424 388396006798 dimer interface [polypeptide binding]; other site 388396006799 ADP-ribose binding site [chemical binding]; other site 388396006800 active site 388396006801 nudix motif; other site 388396006802 metal binding site [ion binding]; metal-binding site 388396006803 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 388396006804 Outer membrane efflux protein; Region: OEP; pfam02321 388396006805 Outer membrane efflux protein; Region: OEP; pfam02321 388396006806 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 388396006807 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 388396006808 putative ribose interaction site [chemical binding]; other site 388396006809 putative ADP binding site [chemical binding]; other site 388396006810 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 388396006811 active site 388396006812 HIGH motif; other site 388396006813 nucleotide binding site [chemical binding]; other site 388396006814 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 388396006815 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 388396006816 metal binding triad; other site 388396006817 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 388396006818 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 388396006819 metal binding triad; other site 388396006820 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396006821 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396006822 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396006823 Ion channel; Region: Ion_trans_2; cl11596 388396006824 Uncharacterized conserved protein [Function unknown]; Region: COG3025 388396006825 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 388396006826 putative active site [active] 388396006827 putative metal binding residues [ion binding]; other site 388396006828 signature motif; other site 388396006829 putative triphosphate binding site [ion binding]; other site 388396006830 CHAD domain; Region: CHAD; cl10506 388396006831 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 388396006832 Phosphate transporter family; Region: PHO4; cl00396 388396006833 Phosphate transporter family; Region: PHO4; cl00396 388396006834 SH3 domain-containing protein; Provisional; Region: PRK10884 388396006835 Bacterial SH3 domain; Region: SH3_3; cl02551 388396006836 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396006837 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 388396006838 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 388396006839 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 388396006840 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 388396006841 active site 388396006842 NTP binding site [chemical binding]; other site 388396006843 metal binding triad [ion binding]; metal-binding site 388396006844 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 388396006845 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 388396006846 Bacitracin resistance protein BacA; Region: BacA; cl00858 388396006847 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 388396006848 catalytic center binding site [active] 388396006849 ATP binding site [chemical binding]; other site 388396006850 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...; Region: DHNA_DHNTPE; cd00534 388396006851 homooctamer interface [polypeptide binding]; other site 388396006852 active site 388396006853 Domain of unknown function (DUF205); Region: DUF205; cl00410 388396006854 UGMP family protein; Validated; Region: PRK09604 388396006855 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 388396006856 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 388396006857 GatB domain; Region: GatB_Yqey; cl11497 388396006858 DNA primase; Validated; Region: dnaG; PRK05667 388396006859 CHC2 zinc finger; Region: zf-CHC2; cl02597 388396006860 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 388396006861 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 388396006862 active site 388396006863 metal binding site [ion binding]; metal-binding site 388396006864 interdomain interaction site; other site 388396006865 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 388396006866 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 388396006867 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 388396006868 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 388396006869 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 388396006870 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 388396006871 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 388396006872 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 388396006873 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...; Region: Sigma70_r4; cd06171 388396006874 DNA binding residues [nucleotide binding] 388396006875 Surface antigen; Region: Surface_Ag_2; cl01155 388396006876 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 388396006877 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 388396006878 pyruvate kinase; Provisional; Region: PRK09206 388396006879 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; cd00288 388396006880 domain interfaces; other site 388396006881 active site 388396006882 Transcriptional regulators [Transcription]; Region: FadR; COG2186 388396006883 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 388396006884 DNA-binding site [nucleotide binding]; DNA binding site 388396006885 FCD domain; Region: FCD; cl11656 388396006886 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 388396006887 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 388396006888 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396006889 metal binding site [ion binding]; metal-binding site 388396006890 active site 388396006891 I-site; other site 388396006892 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 388396006893 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 388396006894 putative valine binding site [chemical binding]; other site 388396006895 dimer interface [polypeptide binding]; other site 388396006896 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 388396006897 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08979 388396006898 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 388396006899 PYR/PP interface [polypeptide binding]; other site 388396006900 dimer interface [polypeptide binding]; other site 388396006901 TPP binding site [chemical binding]; other site 388396006902 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 388396006903 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 388396006904 TPP-binding site [chemical binding]; other site 388396006905 dimer interface [polypeptide binding]; other site 388396006906 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 388396006907 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 388396006908 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 388396006909 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396006910 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 388396006911 putative substrate binding pocket [chemical binding]; other site 388396006912 putative dimerization interface [polypeptide binding]; other site 388396006913 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 388396006914 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 388396006915 nucleotide binding site [chemical binding]; other site 388396006916 substrate binding site [chemical binding]; other site 388396006917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396006918 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 388396006919 cystathionine gamma-synthase; Provisional; Region: PRK08861 388396006920 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 388396006921 homodimer interface [polypeptide binding]; other site 388396006922 substrate-cofactor binding pocket; other site 388396006923 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396006924 catalytic residue [active] 388396006925 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' sequence; Region: Met_repressor_MetJ; cd00490 388396006926 dimerization interface [polypeptide binding]; other site 388396006927 DNA binding site [nucleotide binding] 388396006928 corepressor binding sites; other site 388396006929 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 388396006930 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...; Region: OM_channels; cl00284 388396006931 Maltose operon periplasmic protein precursor (MalM); Region: MalM; cl11647 388396006932 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 388396006933 Malic enzyme, N-terminal domain; Region: malic; pfam00390 388396006934 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 388396006935 putative NAD(P) binding site [chemical binding]; other site 388396006936 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 388396006937 primosome assembly protein PriA; Validated; Region: PRK05580 388396006938 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 388396006939 ATP binding site [chemical binding]; other site 388396006940 putative Mg++ binding site [ion binding]; other site 388396006941 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; cl14882 388396006942 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 388396006943 DNA binding site [nucleotide binding] 388396006944 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 388396006945 domain linker motif; other site 388396006946 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 388396006947 dimerization interface [polypeptide binding]; other site 388396006948 ligand binding site [chemical binding]; other site 388396006949 cell division protein FtsN; Region: ftsN; TIGR02223 388396006950 Sporulation related domain; Region: SPOR; cl10051 388396006951 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 388396006952 active site 388396006953 HslU subunit interaction site [polypeptide binding]; other site 388396006954 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 388396006955 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...; Region: AAA; cd00009 388396006956 Walker A motif; other site 388396006957 ATP binding site [chemical binding]; other site 388396006958 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396006959 OsmC-like protein; Region: OsmC; cl00767 388396006960 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 388396006961 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 388396006962 ligand binding site [chemical binding]; other site 388396006963 flexible hinge region; other site 388396006964 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 388396006965 putative switch regulator; other site 388396006966 non-specific DNA interactions [nucleotide binding]; other site 388396006967 DNA binding site [nucleotide binding] 388396006968 sequence specific DNA binding site [nucleotide binding]; other site 388396006969 putative cAMP binding site [chemical binding]; other site 388396006970 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 388396006971 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 388396006972 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 388396006973 NAD(P) binding site [chemical binding]; other site 388396006974 catalytic residues [active] 388396006975 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 388396006976 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 388396006977 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 388396006978 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 388396006979 inhibitor-cofactor binding pocket; inhibition site 388396006980 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396006981 catalytic residue [active] 388396006982 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 388396006983 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 388396006984 glutamine binding [chemical binding]; other site 388396006985 catalytic triad [active] 388396006986 tryptophanyl-tRNA synthetase; Region: trpS; TIGR00233 388396006987 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 388396006988 active site 388396006989 HIGH motif; other site 388396006990 dimer interface [polypeptide binding]; other site 388396006991 KMSKS motif; other site 388396006992 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 388396006993 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; cl11391 388396006994 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 388396006995 motif II; other site 388396006996 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...; Region: RPE; cd00429 388396006997 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 388396006998 substrate binding site [chemical binding]; other site 388396006999 hexamer interface [polypeptide binding]; other site 388396007000 metal binding site [ion binding]; metal-binding site 388396007001 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 388396007002 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 388396007003 Sporulation related domain; Region: SPOR; cl10051 388396007004 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 388396007005 active site 388396007006 dimer interface [polypeptide binding]; other site 388396007007 metal binding site [ion binding]; metal-binding site 388396007008 shikimate kinase; Reviewed; Region: aroK; PRK00131 388396007009 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...; Region: SK; cd00464 388396007010 ADP binding site [chemical binding]; other site 388396007011 magnesium binding site [ion binding]; other site 388396007012 putative shikimate binding site; other site 388396007013 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 388396007014 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 388396007015 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 388396007016 Pilus assembly protein, PilP; Region: PilP; cl01235 388396007017 Pilus assembly protein, PilO; Region: PilO; cl01234 388396007018 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 388396007019 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 388396007020 Competence protein A; Region: Competence_A; pfam11104 388396007021 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 388396007022 Transglycosylase; Region: Transgly; cl07896 388396007023 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 388396007024 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 388396007025 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396007026 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 388396007027 dimerization interface [polypeptide binding]; other site 388396007028 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 388396007029 catalytic triad [active] 388396007030 dimer interface [polypeptide binding]; other site 388396007031 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 388396007032 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 388396007033 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396007034 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 388396007035 Protein of unknown function (DUF3624); Region: DUF3624; pfam12292 388396007036 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 388396007037 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 388396007038 active sites [active] 388396007039 tetramer interface [polypeptide binding]; other site 388396007040 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 388396007041 Coenzyme A binding pocket [chemical binding]; other site 388396007042 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 388396007043 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 388396007044 ANP binding site [chemical binding]; other site 388396007045 Substrate Binding Site II [chemical binding]; other site 388396007046 Substrate Binding Site I [chemical binding]; other site 388396007047 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 388396007048 nucleotide binding site [chemical binding]; other site 388396007049 substrate binding site [chemical binding]; other site 388396007050 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 388396007051 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396007052 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 388396007053 acetylornithine deacetylase; Provisional; Region: PRK05111 388396007054 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 388396007055 metal binding site [ion binding]; metal-binding site 388396007056 putative dimer interface [polypeptide binding]; other site 388396007057 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 388396007058 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 388396007059 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 388396007060 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...; Region: MTHFR; cd00537 388396007061 FAD binding site [chemical binding]; other site 388396007062 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 388396007063 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 388396007064 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 388396007065 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 388396007066 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 388396007067 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 388396007068 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 388396007069 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 388396007070 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 388396007071 exoribonuclease R; Provisional; Region: PRK11642 388396007072 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 388396007073 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 388396007074 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 388396007075 RNB domain; Region: RNB; pfam00773 388396007076 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 play an...; Region: S1_RNase_R; cd04471 388396007077 RNA binding site [nucleotide binding]; other site 388396007078 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396007079 Rrf2 family protein; Region: rrf2_super; TIGR00738 388396007080 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 388396007081 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 388396007082 heme-binding site [chemical binding]; other site 388396007083 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 388396007084 FAD binding pocket [chemical binding]; other site 388396007085 FAD binding motif [chemical binding]; other site 388396007086 phosphate binding motif [ion binding]; other site 388396007087 beta-alpha-beta structure motif; other site 388396007088 NAD binding pocket [chemical binding]; other site 388396007089 Heme binding pocket [chemical binding]; other site 388396007090 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 388396007091 Sel1 repeat; Region: Sel1; cl02723 388396007092 adenylosuccinate synthetase; Provisional; Region: PRK01117 388396007093 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 r-...; Region: AdSS; cd03108 388396007094 GDP-binding site [chemical binding]; other site 388396007095 ACT binding site; other site 388396007096 IMP binding site; other site 388396007097 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 388396007098 FtsH protease regulator HflC; Provisional; Region: PRK11029 388396007099 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 388396007100 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 388396007101 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 388396007102 HflK protein; Region: hflK; TIGR01933 388396007103 GTPase HflX; Provisional; Region: PRK11058 388396007104 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 388396007105 G1 box; other site 388396007106 GTP/Mg2+ binding site [chemical binding]; other site 388396007107 Switch I region; other site 388396007108 G2 box; other site 388396007109 G3 box; other site 388396007110 Switch II region; other site 388396007111 G4 box; other site 388396007112 G5 box; other site 388396007113 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 388396007114 Sm1 motif; other site 388396007115 intra - hexamer interaction site; other site 388396007116 inter - hexamer interaction site [polypeptide binding]; other site 388396007117 nucleotide binding pocket [chemical binding]; other site 388396007118 Sm2 motif; other site 388396007119 IPP transferase; Region: IPPT; cl00403 388396007120 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 388396007121 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 388396007122 ATP binding site [chemical binding]; other site 388396007123 Mg2+ binding site [ion binding]; other site 388396007124 G-X-G motif; other site 388396007125 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 388396007126 ATP binding site [chemical binding]; other site 388396007127 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 388396007128 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 388396007129 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 388396007130 active site 388396007131 metal binding site [ion binding]; metal-binding site 388396007132 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 388396007133 putative peptidoglycan binding site; other site 388396007134 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 388396007135 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 388396007136 putative peptidoglycan binding site; other site 388396007137 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 388396007138 putative peptidoglycan binding site; other site 388396007139 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 388396007140 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 388396007141 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 388396007142 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 388396007143 putative active site [active] 388396007144 putative substrate binding site [chemical binding]; other site 388396007145 catalytic site [active] 388396007146 dimer interface [polypeptide binding]; other site 388396007147 GTPase RsgA; Reviewed; Region: PRK12288 388396007148 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 388396007149 GTPase/OB domain interface [polypeptide binding]; other site 388396007150 GTPase/Zn-binding domain interface [polypeptide binding]; other site 388396007151 GTP/Mg2+ binding site [chemical binding]; other site 388396007152 G4 box; other site 388396007153 G5 box; other site 388396007154 G1 box; other site 388396007155 Switch I region; other site 388396007156 G2 box; other site 388396007157 G3 box; other site 388396007158 Switch II region; other site 388396007159 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 388396007160 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 388396007161 EamA-like transporter family; Region: EamA; cl01037 388396007162 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 388396007163 poxB regulator PoxA; Provisional; Region: PRK09350 388396007164 motif 1; other site 388396007165 dimer interface [polypeptide binding]; other site 388396007166 active site 388396007167 motif 2; other site 388396007168 motif 3; other site 388396007169 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 388396007170 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396007171 domain; Region: Succ_DH_flav_C; pfam02910 388396007172 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 388396007173 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; 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:quinine...; Region: QFR_TypeD_subunitC; cd00546 388396007174 D-subunit interface [polypeptide binding]; other site 388396007175 Iron-sulfur protein interface; other site 388396007176 proximal quinone binding site [chemical binding]; other site 388396007177 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; 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:quinine...; Region: QFR_TypeD_subunitD; cd00547 388396007178 Iron-sulfur protein interface; other site 388396007179 proximal quinone binding site [chemical binding]; other site 388396007180 C-subunit interface; other site 388396007181 distal quinone binding site; other site 388396007182 elongation factor P; Validated; Region: PRK00529 388396007183 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 388396007184 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 388396007185 RNA binding site [nucleotide binding]; other site 388396007186 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 388396007187 RNA binding site [nucleotide binding]; other site 388396007188 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 388396007189 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 388396007190 FeS/SAM binding site; other site 388396007191 6-phosphofructokinase; Provisional; Region: PRK03202 388396007192 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 388396007193 active site 388396007194 ADP/pyrophosphate binding site [chemical binding]; other site 388396007195 dimerization interface [polypeptide binding]; other site 388396007196 allosteric effector site; other site 388396007197 fructose-1,6-bisphosphate binding site; other site 388396007198 Cation efflux family; Region: Cation_efflux; cl00316 388396007199 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 388396007200 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 388396007201 dimer interface [polypeptide binding]; other site 388396007202 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 388396007203 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 388396007204 active site 388396007205 phosphorylation site [posttranslational modification] 388396007206 intermolecular recognition site; other site 388396007207 dimerization interface [polypeptide binding]; other site 388396007208 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...; Region: trans_reg_C; cd00383 388396007209 DNA binding site [nucleotide binding] 388396007210 two-component sensor protein; Provisional; Region: cpxA; PRK09470 388396007211 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396007212 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 trans-...; Region: HisKA; cd00082 388396007213 dimer interface [polypeptide binding]; other site 388396007214 phosphorylation site [posttranslational modification] 388396007215 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 388396007216 ATP binding site [chemical binding]; other site 388396007217 Mg2+ binding site [ion binding]; other site 388396007218 G-X-G motif; other site 388396007219 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 388396007220 serine acetyltransferase; Provisional; Region: cysE; PRK11132 388396007221 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 388396007222 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 L-...; Region: LbH_SAT; cd03354 388396007223 trimer interface [polypeptide binding]; other site 388396007224 active site 388396007225 substrate binding site [chemical binding]; other site 388396007226 CoA binding site [chemical binding]; other site 388396007227 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 388396007228 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396007229 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 388396007230 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 388396007231 SecA binding site; other site 388396007232 Preprotein binding site; other site 388396007233 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 388396007234 active site residue [active] 388396007235 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 388396007236 Peptidase family M23; Region: Peptidase_M23; pfam01551 388396007237 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 388396007238 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 388396007239 Aspartase; Region: Aspartase; cd01357 388396007240 active sites [active] 388396007241 tetramer interface [polypeptide binding]; other site 388396007242 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 388396007243 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 388396007244 Ligand Binding Site [chemical binding]; other site 388396007245 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 388396007246 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 388396007247 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 388396007248 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 388396007249 DsbD alpha interface [polypeptide binding]; other site 388396007250 catalytic residues [active] 388396007251 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...; Region: GlcN6P_deaminase; cd01399 388396007252 active site 388396007253 trimer interface [polypeptide binding]; other site 388396007254 allosteric site; other site 388396007255 active site lid [active] 388396007256 hexamer (dimer of trimers) interface [polypeptide binding]; other site 388396007257 Major Facilitator Superfamily; Region: MFS_1; pfam07690 388396007258 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 388396007259 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 388396007260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396007261 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 388396007262 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 388396007263 dimerization interface [polypeptide binding]; other site 388396007264 putative DNA binding site [nucleotide binding]; other site 388396007265 putative Zn2+ binding site [ion binding]; other site 388396007266 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396007267 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 388396007268 dimerization interface [polypeptide binding]; other site 388396007269 Uncharacterized conserved protein [Function unknown]; Region: COG5361 388396007270 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 388396007271 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 388396007272 Surface antigen; Region: Bac_surface_Ag; cl03097 388396007273 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 388396007274 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 388396007275 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396007276 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 388396007277 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 388396007278 metal binding site [ion binding]; metal-binding site 388396007279 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 388396007280 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396007281 Walker A/P-loop; other site 388396007282 ATP binding site [chemical binding]; other site 388396007283 Q-loop/lid; other site 388396007284 ABC transporter signature motif; other site 388396007285 Walker B; other site 388396007286 D-loop; other site 388396007287 H-loop/switch region; other site 388396007288 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...; Region: TM_ABC_iron-siderophores_like; cd06550 388396007289 dimer interface [polypeptide binding]; other site 388396007290 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 388396007291 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 388396007292 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 388396007293 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 388396007294 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 388396007295 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 388396007296 putative NAD(P) binding site [chemical binding]; other site 388396007297 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 388396007298 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...; Region: GFAT; cd00714 388396007299 glutaminase active site [active] 388396007300 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 388396007301 dimer interface [polypeptide binding]; other site 388396007302 active site 388396007303 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 388396007304 dimer interface [polypeptide binding]; other site 388396007305 active site 388396007306 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 388396007307 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396007308 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 388396007309 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 388396007310 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; cl09944 388396007311 active site 388396007312 phosphorylation site [posttranslational modification] 388396007313 intermolecular recognition site; other site 388396007314 dimerization interface [polypeptide binding]; other site 388396007315 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...; Region: LuxR_C_like; cd06170 388396007316 DNA binding residues [nucleotide binding] 388396007317 dimerization interface [polypeptide binding]; other site 388396007318 MarC family integral membrane protein; Region: MarC; cl00919 388396007319 Predicted membrane protein [Function unknown]; Region: COG4327; cl01781 388396007320 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 388396007321 Sodium:solute symporter family; Region: SSF; cl00456 388396007322 Sodium:solute symporter family; Region: SSF; cl00456 388396007323 PAS fold; Region: PAS_7; pfam12860 388396007324 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 trans-...; Region: HisKA; cd00082 388396007325 dimer interface [polypeptide binding]; other site 388396007326 phosphorylation site [posttranslational modification] 388396007327 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 388396007328 ATP binding site [chemical binding]; other site 388396007329 Mg2+ binding site [ion binding]; other site 388396007330 G-X-G motif; other site 388396007331 Response regulator receiver domain; Region: Response_reg; pfam00072 388396007332 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 388396007333 active site 388396007334 phosphorylation site [posttranslational modification] 388396007335 intermolecular recognition site; other site 388396007336 dimerization interface [polypeptide binding]; other site 388396007337 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 388396007338 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 388396007339 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 388396007340 ligand binding site [chemical binding]; other site 388396007341 flexible hinge region; other site 388396007342 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the bacterial CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain. Members of CAP_ED, include...; Region: CBS_pair_CAP-ED_DUF294_assoc_bac; cd04589 388396007343 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 388396007344 metal binding triad; other site 388396007345 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 388396007346 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 388396007347 active site 388396007348 substrate binding site [chemical binding]; other site 388396007349 catalytic site [active] 388396007350 acetyl-CoA synthetase; Provisional; Region: PRK00174 388396007351 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 388396007352 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 388396007353 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 388396007354 active site 388396007355 trimer interface [polypeptide binding]; other site 388396007356 dimer interface [polypeptide binding]; other site 388396007357 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 388396007358 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 388396007359 carboxyltransferase (CT) interaction site; other site 388396007360 biotinylation site [posttranslational modification]; other site 388396007361 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 388396007362 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 388396007363 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 388396007364 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 388396007365 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 388396007366 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; cl12011 388396007367 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 388396007368 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...; Region: DUS_like_FMN; cd02801 388396007369 FMN binding site [chemical binding]; other site 388396007370 active site 388396007371 catalytic residues [active] 388396007372 substrate binding site [chemical binding]; other site 388396007373 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 388396007374 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 388396007375 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 388396007376 DNA binding residues [nucleotide binding] 388396007377 dimer interface [polypeptide binding]; other site 388396007378 metal binding site [ion binding]; metal-binding site 388396007379 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 388396007380 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 388396007381 purine monophosphate binding site [chemical binding]; other site 388396007382 dimer interface [polypeptide binding]; other site 388396007383 putative catalytic residues [active] 388396007384 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 388396007385 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 388396007386 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 388396007387 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 388396007388 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 388396007389 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 388396007390 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 higher-...; Region: HU_IHF; cd00591 388396007391 IHF dimer interface [polypeptide binding]; other site 388396007392 IHF - DNA interface [nucleotide binding]; other site 388396007393 Domain of unknown function DUF21; Region: DUF21; pfam01595 388396007394 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 388396007395 Protein of unknown function (DUF416); Region: DUF416; cl01166 388396007396 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 388396007397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396007398 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 388396007399 putative metal binding site [ion binding]; other site 388396007400 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...; Region: URO-D; cd00717 388396007401 substrate binding site [chemical binding]; other site 388396007402 active site 388396007403 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 388396007404 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 388396007405 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 388396007406 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 388396007407 putative NADH binding site [chemical binding]; other site 388396007408 putative active site [active] 388396007409 nudix motif; other site 388396007410 putative metal binding site [ion binding]; other site 388396007411 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; cl11478 388396007412 Curli production assembly/transport component CsgG; Region: CsgG; cl00639 388396007413 Curli production assembly/transport component CsgF; Region: Tafi-CsgF; cl08082 388396007414 Curli assembly protein CsgE; Region: CsgE; cl08115 388396007415 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 388396007416 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...; Region: LuxR_C_like; cd06170 388396007417 DNA binding residues [nucleotide binding] 388396007418 dimerization interface [polypeptide binding]; other site 388396007419 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 388396007420 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 388396007421 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 388396007422 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 388396007423 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 388396007424 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 388396007425 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 388396007426 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 388396007427 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 388396007428 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 388396007429 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 388396007430 DNA binding site [nucleotide binding] 388396007431 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 388396007432 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; cl04593 388396007433 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 388396007434 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 388396007435 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 388396007436 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; cl04593 388396007437 RPB11 interaction site [polypeptide binding]; other site 388396007438 RPB12 interaction site [polypeptide binding]; other site 388396007439 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 388396007440 RPB3 interaction site [polypeptide binding]; other site 388396007441 RPB1 interaction site [polypeptide binding]; other site 388396007442 RPB11 interaction site [polypeptide binding]; other site 388396007443 RPB10 interaction site [polypeptide binding]; other site 388396007444 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 388396007445 core dimer interface [polypeptide binding]; other site 388396007446 peripheral dimer interface [polypeptide binding]; other site 388396007447 L10 interface [polypeptide binding]; other site 388396007448 L11 interface [polypeptide binding]; other site 388396007449 putative EF-Tu interaction site [polypeptide binding]; other site 388396007450 putative EF-G interaction site [polypeptide binding]; other site 388396007451 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...; Region: Ribosomal_L10; cd05797 388396007452 23S rRNA interface [nucleotide binding]; other site 388396007453 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 388396007454 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...; Region: Ribosomal_L1; cd00403 388396007455 mRNA/rRNA interface [nucleotide binding]; other site 388396007456 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 388396007457 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 388396007458 23S rRNA interface [nucleotide binding]; other site 388396007459 L7/L12 interface [polypeptide binding]; other site 388396007460 putative thiostrepton binding site; other site 388396007461 L25 interface [polypeptide binding]; other site 388396007462 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 388396007463 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 388396007464 putative homodimer interface [polypeptide binding]; other site 388396007465 KOW (Kyprides, Ouzounis, Woese) motif; Region: KOW; smart00739 388396007466 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 388396007467 elongation factor Tu; Reviewed; Region: PRK00049 388396007468 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 388396007469 G1 box; other site 388396007470 GEF interaction site [polypeptide binding]; other site 388396007471 GTP/Mg2+ binding site [chemical binding]; other site 388396007472 Switch I region; other site 388396007473 G2 box; other site 388396007474 G3 box; other site 388396007475 Switch II region; other site 388396007476 G4 box; other site 388396007477 G5 box; other site 388396007478 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 388396007479 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 388396007480 Antibiotic Binding Site [chemical binding]; other site 388396007481 pantothenate kinase; Provisional; Region: PRK05439 388396007482 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 in...; Region: PanK; cd02025 388396007483 ATP-binding site [chemical binding]; other site 388396007484 CoA-binding site [chemical binding]; other site 388396007485 Mg2+-binding site [ion binding]; other site 388396007486 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396007487 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 388396007488 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 388396007489 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 388396007490 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 388396007491 FAD binding domain; Region: FAD_binding_4; pfam01565 388396007492 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 388396007493 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 388396007494 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 388396007495 domain interface [polypeptide binding]; other site 388396007496 putative active site [active] 388396007497 catalytic site [active] 388396007498 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 388396007499 domain interface [polypeptide binding]; other site 388396007500 putative active site [active] 388396007501 catalytic site [active] 388396007502 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 388396007503 RNA/DNA binding site [nucleotide binding]; other site 388396007504 RRM dimerization site [polypeptide binding]; other site 388396007505 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 388396007506 MJ0570-related uncharacterized domain; Region: MJ0570_dom; TIGR00290 388396007507 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...; Region: Alpha_ANH_like_IV; cd01994 388396007508 Ligand Binding Site [chemical binding]; other site 388396007509 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 388396007510 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 388396007511 N-terminal plug; other site 388396007512 ligand-binding site [chemical binding]; other site 388396007513 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 388396007514 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; cl12011 388396007515 Protein of unknown function (DUF1422); Region: DUF1422; cl11649 388396007516 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 388396007517 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 388396007518 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 388396007519 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396007520 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 388396007521 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 388396007522 MatE; Region: MatE; pfam01554 388396007523 MatE; Region: MatE; pfam01554 388396007524 Leucine carboxyl methyltransferase; Region: LCM; cl01306 388396007525 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396007526 LexA repressor; Validated; Region: PRK00215 388396007527 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 (...; Region: S24_LexA-like; cd06529 388396007528 Catalytic site [active] 388396007529 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 388396007530 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 388396007531 putative acyl-acceptor binding pocket; other site 388396007532 UbiA prenyltransferase family; Region: UbiA; cl00337 388396007533 Chorismate lyase; Region: Chor_lyase; cl01230 388396007534 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 388396007535 intramembrane serine protease GlpG; Provisional; Region: PRK10907 388396007536 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 388396007537 Rhomboid family; Region: Rhomboid; cl11446 388396007538 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 388396007539 active site residue [active] 388396007540 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 388396007541 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 388396007542 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 388396007543 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...; Region: Sigma70_r4; cl01055 388396007544 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 388396007545 FtsX-like permease family; Region: FtsX; pfam02687 388396007546 cell division protein FtsE; Provisional; Region: PRK10908 388396007547 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396007548 Walker A/P-loop; other site 388396007549 ATP binding site [chemical binding]; other site 388396007550 Q-loop/lid; other site 388396007551 ABC transporter signature motif; other site 388396007552 Walker B; other site 388396007553 D-loop; other site 388396007554 H-loop/switch region; other site 388396007555 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 388396007556 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 388396007557 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 388396007558 P loop; other site 388396007559 GTP binding site [chemical binding]; other site 388396007560 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 388396007561 S-adenosylmethionine binding site [chemical binding]; other site 388396007562 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 388396007563 MarC family integral membrane protein; Region: MarC; cl00919 388396007564 Protein of unknown function (DUF2492); Region: DUF2492; cl11278 388396007565 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 388396007566 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 388396007567 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 four-...; Region: RecG_wedge_OBF; cd04488 388396007568 ssDNA binding site; other site 388396007569 generic binding surface II; other site 388396007570 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 388396007571 ATP binding site [chemical binding]; other site 388396007572 putative Mg++ binding site [ion binding]; other site 388396007573 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 388396007574 nucleotide binding region [chemical binding]; other site 388396007575 ATP-binding site [chemical binding]; other site 388396007576 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 388396007577 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 388396007578 NifU-like domain; Region: NifU; cl00484 388396007579 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 cysteine...; Region: CysQ; cd01638 388396007580 active site 388396007581 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 388396007582 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...; Region: ADPRase_NUDT5; cd03424 388396007583 dimer interface [polypeptide binding]; other site 388396007584 ADP-ribose binding site [chemical binding]; other site 388396007585 active site 388396007586 nudix motif; other site 388396007587 metal binding site [ion binding]; metal-binding site 388396007588 Bacterial type II secretion system protein N; Region: GSPII_N; pfam01203 388396007589 General secretion pathway, M protein; Region: GspM; cl01222 388396007590 GspL cytoplasmic actin-ATPase-like region; Region: GspL; pfam05134 388396007591 GspL periplasmic domain; Region: GspL_C; cl14909 388396007592 General secretion pathway protein K; Region: GspK; pfam03934 388396007593 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 388396007594 general secretion pathway protein J; Region: gspJ; TIGR01711 388396007595 Pseudopilin GspJ; Region: GspJ; pfam11612 388396007596 general secretion pathway protein I; Region: gspI; TIGR01707 388396007597 Bacterial type II secretion system protein I/J; Region: GSPII_IJ; pfam02501 388396007598 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 388396007599 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 388396007600 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 388396007601 general secretion pathway protein F; Region: GspF; TIGR02120 388396007602 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 388396007603 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 388396007604 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 388396007605 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 388396007606 Walker A motif; other site 388396007607 ATP binding site [chemical binding]; other site 388396007608 Walker B motif; other site 388396007609 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 388396007610 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 388396007611 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 388396007612 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 388396007613 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 388396007614 general secretion pathway protein C; Region: typeII_sec_gspC; TIGR01713 388396007615 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 C-...; Region: PDZ_serine_protease; cd00987 388396007616 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 388396007617 RNA binding surface [nucleotide binding]; other site 388396007618 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 388396007619 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 388396007620 dimerization interface [polypeptide binding]; other site 388396007621 domain crossover interface; other site 388396007622 redox-dependent activation switch; other site 388396007623 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 388396007624 active site 388396007625 substrate-binding site [chemical binding]; other site 388396007626 metal-binding site [ion binding] 388396007627 ATP binding site [chemical binding]; other site 388396007628 AsmA family; Region: AsmA; pfam05170 388396007629 AsmA family; Region: AsmA; pfam05170 388396007630 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 388396007631 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 388396007632 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 388396007633 lysophospholipase L2; Provisional; Region: PRK10749 388396007634 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 388396007635 putative hydrolase; Provisional; Region: PRK10976 388396007636 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 388396007637 active site 388396007638 motif I; other site 388396007639 motif II; other site 388396007640 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; cl11391 388396007641 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 388396007642 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 388396007643 DNA binding site [nucleotide binding] 388396007644 Int/Topo IB signature motif; other site 388396007645 active site 388396007646 Protein of unknown function, DUF484; Region: DUF484; cl01228 388396007647 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 388396007648 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 388396007649 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 388396007650 diaminopimelate decarboxylase; Region: lysA; TIGR01048 388396007651 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 388396007652 active site 388396007653 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 388396007654 substrate binding site [chemical binding]; other site 388396007655 catalytic residues [active] 388396007656 dimer interface [polypeptide binding]; other site 388396007657 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 388396007658 putative iron binding site [ion binding]; other site 388396007659 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 388396007660 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 388396007661 active site 388396007662 Zn binding site [ion binding]; other site 388396007663 Protein of unknown function (DUF519); Region: DUF519; cl04492 388396007664 glutathione reductase; Validated; Region: PRK06116 388396007665 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396007666 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 388396007667 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 388396007668 active site 388396007669 catalytic triad [active] 388396007670 ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]; Region: ClpX; COG1219 388396007671 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...; Region: AAA; cd00009 388396007672 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 388396007673 Walker A motif; other site 388396007674 ATP binding site [chemical binding]; other site 388396007675 Walker B motif; other site 388396007676 arginine finger; other site 388396007677 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 388396007678 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a...; Region: DsbA_Com1_like; cd03023 388396007679 catalytic residues [active] 388396007680 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 388396007681 catalytic residues [active] 388396007682 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 388396007683 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 388396007684 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 388396007685 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 388396007686 DsbD alpha interface [polypeptide binding]; other site 388396007687 catalytic residues [active] 388396007688 Catalytic domain of Protein Kinases; Region: PKc; cd00180 388396007689 active site 388396007690 ATP binding site [chemical binding]; other site 388396007691 substrate binding site [chemical binding]; other site 388396007692 activation loop (A-loop); other site 388396007693 RNA polymerase sigma factor, TIGR02999 family; Region: Sig-70_X6 388396007694 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 388396007695 conserved hypothetical protein EF_0830/AHA_3911; Region: EF_0830; TIGR03577 388396007696 conserved hypothetical protein EF_0831/AHA_3912; Region: EF_0831; TIGR03578 388396007697 conserved hypothetical protein EF_0832/AHA_3913; Region: EF_0832; TIGR03580 388396007698 conserved hypothetical protein EF_0833/AHA_3914; Region: EF_0833; TIGR03579 388396007699 dihydroorotase; Provisional; Region: PRK09237 388396007700 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...; Region: metallo-dependent_hydrolases; cl00281 388396007701 active site 388396007702 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 388396007703 Protein of unknown function (DUF1341); Region: DUF1341; cl06211 388396007704 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396007705 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 388396007706 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396007707 PRD domain; Region: PRD; pfam00874 388396007708 PRD domain; Region: PRD; pfam00874 388396007709 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 388396007710 P-loop; other site 388396007711 active site 388396007712 phosphorylation site [posttranslational modification] 388396007713 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 388396007714 active site 388396007715 phosphorylation site [posttranslational modification] 388396007716 Sporulation related domain; Region: SPOR; cl10051 388396007717 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 388396007718 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 388396007719 ligand binding site [chemical binding]; other site 388396007720 flexible hinge region; other site 388396007721 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 388396007722 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 388396007723 metal binding triad; other site 388396007724 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 388396007725 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 388396007726 active site 388396007727 substrate binding site [chemical binding]; other site 388396007728 catalytic site [active] 388396007729 BCCT family transporter; Region: BCCT; cl00569 388396007730 dipeptide transporter; Provisional; Region: PRK10913 388396007731 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396007732 dimer interface [polypeptide binding]; other site 388396007733 conserved gate region; other site 388396007734 putative PBP binding loops; other site 388396007735 ABC-ATPase subunit interface; other site 388396007736 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 388396007737 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396007738 dimer interface [polypeptide binding]; other site 388396007739 conserved gate region; other site 388396007740 putative PBP binding loops; other site 388396007741 ABC-ATPase subunit interface; other site 388396007742 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 388396007743 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 388396007744 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 388396007745 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 388396007746 Walker A/P-loop; other site 388396007747 ATP binding site [chemical binding]; other site 388396007748 Q-loop/lid; other site 388396007749 ABC transporter signature motif; other site 388396007750 Walker B; other site 388396007751 D-loop; other site 388396007752 H-loop/switch region; other site 388396007753 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 388396007754 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 388396007755 Walker A/P-loop; other site 388396007756 ATP binding site [chemical binding]; other site 388396007757 Q-loop/lid; other site 388396007758 ABC transporter signature motif; other site 388396007759 Walker B; other site 388396007760 D-loop; other site 388396007761 H-loop/switch region; other site 388396007762 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 388396007763 Cytochrome c; Region: Cytochrom_C; cl11414 388396007764 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 388396007765 UvrD/REP helicase; Region: UvrD-helicase; cl14126 388396007766 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 388396007767 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 388396007768 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 388396007769 multidrug efflux protein; Reviewed; Region: PRK09579 388396007770 Membrane fusogenic activity; Region: BMFP; cl01115 388396007771 ketol-acid reductoisomerase; Validated; Region: PRK05225 388396007772 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396007773 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 388396007774 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 388396007775 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 388396007776 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396007777 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 388396007778 putative dimerization interface [polypeptide binding]; other site 388396007779 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 388396007780 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 388396007781 trimer interface [polypeptide binding]; other site 388396007782 putative metal binding site [ion binding]; other site 388396007783 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 388396007784 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 388396007785 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 388396007786 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 388396007787 shikimate binding site; other site 388396007788 NAD(P) binding site [chemical binding]; other site 388396007789 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 388396007790 AIR carboxylase; Region: AIRC; cl00310 388396007791 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 388396007792 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 388396007793 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 388396007794 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 388396007795 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 388396007796 Protein of unknown function (DUF494); Region: DUF494; cl01103 388396007797 hypothetical protein; Provisional; Region: PRK10736 388396007798 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 388396007799 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 388396007800 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 388396007801 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(...; Region: Pep_deformylase; cd00487 388396007802 active site 388396007803 catalytic residues [active] 388396007804 metal binding site [ion binding]; metal-binding site 388396007805 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 388396007806 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 388396007807 putative active site [active] 388396007808 substrate binding site [chemical binding]; other site 388396007809 putative cosubstrate binding site; other site 388396007810 catalytic site [active] 388396007811 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 388396007812 substrate binding site [chemical binding]; other site 388396007813 16S rRNA methyltransferase B; Provisional; Region: PRK10901 388396007814 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 388396007815 putative RNA binding site [nucleotide binding]; other site 388396007816 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 388396007817 S-adenosylmethionine binding site [chemical binding]; other site 388396007818 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 388396007819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396007820 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; cl09110 388396007821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396007822 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; cl09110 388396007823 Cation transport protein; Region: TrkH; cl10514 388396007824 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 388396007825 Haemolysin-III related; Region: HlyIII; cl03831 388396007826 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 388396007827 SpoOM protein; Region: Spo0M; pfam07070 388396007828 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 388396007829 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 388396007830 4Fe-4S binding domain; Region: Fer4_5; pfam12801 388396007831 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 alpha-; Region: HCP_like; cl14655 388396007832 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 388396007833 Phosphotransferase enzyme family; Region: APH; pfam01636 388396007834 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 388396007835 active site 388396007836 ATP binding site [chemical binding]; other site 388396007837 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 388396007838 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 388396007839 catalytic residues [active] 388396007840 hinge region; other site 388396007841 alpha helical domain; other site 388396007842 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 388396007843 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 388396007844 putative acyl-acceptor binding pocket; other site 388396007845 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 388396007846 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 388396007847 putative ATP-dependent protease; Provisional; Region: PRK09862 388396007848 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396007849 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 388396007850 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 388396007851 PYR/PP interface [polypeptide binding]; other site 388396007852 dimer interface [polypeptide binding]; other site 388396007853 TPP binding site [chemical binding]; other site 388396007854 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 388396007855 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 388396007856 TPP-binding site [chemical binding]; other site 388396007857 dimer interface [polypeptide binding]; other site 388396007858 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 388396007859 branched-chain amino acid aminotransferase; Provisional; Region: PRK12479 388396007860 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 alpha-...; Region: BCAT_beta_family; cd01557 388396007861 homodimer interface [polypeptide binding]; other site 388396007862 substrate-cofactor binding pocket; other site 388396007863 catalytic residue [active] 388396007864 Dehydratase family; Region: ILVD_EDD; cl00340 388396007865 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 388396007866 threonine dehydratase; Reviewed; Region: PRK09224 388396007867 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 388396007868 tetramer interface [polypeptide binding]; other site 388396007869 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396007870 catalytic residue [active] 388396007871 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 388396007872 putative Ile/Val binding site [chemical binding]; other site 388396007873 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 388396007874 putative Ile/Val binding site [chemical binding]; other site 388396007875 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 protein...; Region: CSP_CDS; cd04458 388396007876 DNA-binding site [nucleotide binding]; DNA binding site 388396007877 RNA-binding motif; other site 388396007878 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 388396007879 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 388396007880 Substrate binding site [chemical binding]; other site 388396007881 Mg++ binding site [ion binding]; other site 388396007882 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 388396007883 active site 388396007884 substrate binding site [chemical binding]; other site 388396007885 CoA binding site [chemical binding]; other site 388396007886 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 388396007887 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 388396007888 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 388396007889 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 388396007890 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 388396007891 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 388396007892 alpha subunit interaction interface [polypeptide binding]; other site 388396007893 Walker A motif; other site 388396007894 ATP binding site [chemical binding]; other site 388396007895 Walker B motif; other site 388396007896 inhibitor binding site; inhibition site 388396007897 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 388396007898 ATP synthase; Region: ATP-synt; cl00365 388396007899 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 388396007900 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 388396007901 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 388396007902 beta subunit interaction interface [polypeptide binding]; other site 388396007903 Walker A motif; other site 388396007904 ATP binding site [chemical binding]; other site 388396007905 Walker B motif; other site 388396007906 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 388396007907 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 388396007908 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 388396007909 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 388396007910 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 388396007911 ATP synthase subunit C; Region: ATP-synt_C; cl00466 388396007912 ATP synthase A chain; Region: ATP-synt_A; cl00413 388396007913 ATP synthase I chain; Region: ATP_synt_I; cl09170 388396007914 ParB-like partition proteins; Region: parB_part; TIGR00180 388396007915 ParB-like nuclease domain; Region: ParBc; cl02129 388396007916 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 388396007917 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...; Region: ParA; cd02042 388396007918 P-loop; other site 388396007919 Magnesium ion binding site [ion binding]; other site 388396007920 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...; Region: ParA; cd02042 388396007921 Magnesium ion binding site [ion binding]; other site 388396007922 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 388396007923 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 388396007924 S-adenosylmethionine binding site [chemical binding]; other site 388396007925 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 388396007926 glucose-inhibited division protein A; Region: gidA; TIGR00136 388396007927 Protein of unknown function (DUF3346); Region: DUF3346; pfam11826 388396007928 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 388396007929 UvrD/REP helicase; Region: UvrD-helicase; cl14126 388396007930 UvrD/REP helicase; Region: UvrD-helicase; cl14126 388396007931 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 388396007932 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 388396007933 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...; Region: ParA; cd02042 388396007934 P-loop; other site 388396007935 Magnesium ion binding site [ion binding]; other site 388396007936 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...; Region: ParA; cd02042 388396007937 Magnesium ion binding site [ion binding]; other site 388396007938 plasmid-partitioning protein; Provisional; Region: PRK13698 388396007939 ParB-like nuclease domain; Region: ParBc; cl02129 388396007940 DGQHR domain; Region: DGQHR; cl14002 388396007941 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 388396007942 Ligand Binding Site [chemical binding]; other site 388396007943 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 388396007944 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...; Region: ParA; cd02042 388396007945 P-loop; other site 388396007946 Magnesium ion binding site [ion binding]; other site 388396007947 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...; Region: ParA; cd02042 388396007948 Magnesium ion binding site [ion binding]; other site 388396007949 Protein of unknown function (DUF3289); Region: DUF3289; cl11840 388396007950 Protein of unknown function (DUF3289); Region: DUF3289; cl11840 388396007951 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 388396007952 HsdM N-terminal domain; Region: HsdM_N; pfam12161 388396007953 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 388396007954 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 388396007955 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 388396007956 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 388396007957 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; cl14882 388396007958 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 388396007959 Fic family protein [Function unknown]; Region: COG3177 388396007960 proteasome accessory factor PafA2; Region: pupylate_PafA2; TIGR03688 388396007961 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 388396007962 Domain of unknown function (DUF932); Region: DUF932; cl12129 388396007963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 388396007964 terminal organelle assembly protein TopJ; Region: termin_org_DnaJ; TIGR03835 388396007965 ribonuclease E; Reviewed; Region: rne; PRK10811 388396007966 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 388396007967 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 388396007968 active site 388396007969 metal binding site [ion binding]; metal-binding site 388396007970 hypothetical protein; Provisional; Region: PRK10506 388396007971 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 388396007972 Type II/IV secretion system protein; Region: GSPII_E; pfam00437 388396007973 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396007974 Walker A motif; other site 388396007975 ATP binding site [chemical binding]; other site 388396007976 Walker B motif; other site 388396007977 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 388396007978 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 388396007979 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 388396007980 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 388396007981 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396007982 Walker A motif; other site 388396007983 ATP binding site [chemical binding]; other site 388396007984 Walker B motif; other site 388396007985 AAA-like domain; Region: AAA_10; pfam12846 388396007986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 388396007987 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...; Region: HNHc; cl00083 388396007988 hypothetical protein; Provisional; Region: PRK10722 388396007989 Protein of unknown function (DUF3625); Region: DUF3625; pfam12293 388396007990 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 388396007991 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 388396007992 DNA topoisomerase III; Provisional; Region: PRK07726 388396007993 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 388396007994 active site 388396007995 metal binding site [ion binding]; metal-binding site 388396007996 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...; Region: TOP1Ac; cl11986 388396007997 domain II; other site 388396007998 domain III; other site 388396007999 nucleotide binding site [chemical binding]; other site 388396008000 DNA binding groove [nucleotide binding] 388396008001 catalytic site [active] 388396008002 domain IV; other site 388396008003 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 388396008004 UvrD/REP helicase; Region: UvrD-helicase; cl14126 388396008005 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 388396008006 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 388396008007 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 388396008008 active site 388396008009 substrate binding site [chemical binding]; other site 388396008010 Mg2+ binding site [ion binding]; other site 388396008011 TfoX N-terminal domain; Region: TfoX_N; cl01167 388396008012 TfoX N-terminal domain; Region: TfoX_N; cl01167 388396008013 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]; Region: COG4262 388396008014 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; cl12011 388396008015 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396008016 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396008017 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396008018 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396008019 Walker A/P-loop; other site 388396008020 ATP binding site [chemical binding]; other site 388396008021 Q-loop/lid; other site 388396008022 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 388396008023 Integrase core domain; Region: rve; cl01316 388396008024 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 388396008025 Integrase core domain; Region: rve; cl01316 388396008026 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 388396008027 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 388396008028 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396008029 Walker A/P-loop; other site 388396008030 ATP binding site [chemical binding]; other site 388396008031 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 388396008032 Q-loop/lid; other site 388396008033 ABC transporter signature motif; other site 388396008034 Walker B; other site 388396008035 D-loop; other site 388396008036 H-loop/switch region; other site 388396008037 Protein of unknown function (DUF796); Region: DUF796; cl01226 388396008038 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 388396008039 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 388396008040 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 388396008041 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396008042 Walker A/P-loop; other site 388396008043 ATP binding site [chemical binding]; other site 388396008044 Q-loop/lid; other site 388396008045 ABC transporter signature motif; other site 388396008046 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396008047 ABC transporter signature motif; other site 388396008048 Walker B; other site 388396008049 D-loop; other site 388396008050 H-loop/switch region; other site 388396008051 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 388396008052 Phage integrase family; Region: Phage_integrase; pfam00589 388396008053 DNA binding site [nucleotide binding] 388396008054 Int/Topo IB signature motif; other site 388396008055 active site 388396008056 Protein of unknown function (DUF3346); Region: DUF3346; pfam11826 388396008057 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 388396008058 homotrimer interaction site [polypeptide binding]; other site 388396008059 putative active site [active] 388396008060 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 388396008061 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396008062 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396008063 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 388396008064 E-class dimer interface [polypeptide binding]; other site 388396008065 P-class dimer interface [polypeptide binding]; other site 388396008066 active site 388396008067 Cu2+ binding site [ion binding]; other site 388396008068 Zn2+ binding site [ion binding]; other site 388396008069 Surface antigen; Region: Surface_Ag_2; cl01155 388396008070 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 388396008071 ligand binding site [chemical binding]; other site 388396008072 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 388396008073 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 388396008074 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 388396008075 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 388396008076 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 388396008077 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 388396008078 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 388396008079 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 388396008080 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 388396008081 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 388396008082 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 388396008083 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 388396008084 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 388396008085 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 388396008086 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 388396008087 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 388396008088 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 388396008089 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 388396008090 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 388396008091 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 388396008092 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 388396008093 peptidase T-like protein; Region: PepT-like; TIGR01883 388396008094 metal binding site [ion binding]; metal-binding site 388396008095 putative dimer interface [polypeptide binding]; other site 388396008096 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 388396008097 SelR domain; Region: SelR; cl00369 388396008098 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 388396008099 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 388396008100 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 388396008101 active site 388396008102 nucleophile elbow; other site 388396008103 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 388396008104 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 388396008105 tetramer interface [polypeptide binding]; other site 388396008106 heme binding pocket [chemical binding]; other site 388396008107 NADPH binding site [chemical binding]; other site 388396008108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 388396008109 Chitin binding domain; Region: Chitin_bind_3; cl03871 388396008110 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 388396008111 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 388396008112 chitin/cellulose binding site [chemical binding]; other site 388396008113 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 388396008114 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396008115 Walker A/P-loop; other site 388396008116 ATP binding site [chemical binding]; other site 388396008117 Q-loop/lid; other site 388396008118 ABC transporter signature motif; other site 388396008119 Walker B; other site 388396008120 D-loop; other site 388396008121 H-loop/switch region; other site 388396008122 ABC transporter; Region: ABC_tran_2; pfam12848 388396008123 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 388396008124 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 388396008125 active site 388396008126 substrate binding site [chemical binding]; other site 388396008127 catalytic site [active] 388396008128 GTPase RsgA; Reviewed; Region: PRK01889 388396008129 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 388396008130 GTPase/OB domain interface [polypeptide binding]; other site 388396008131 GTPase/Zn-binding domain interface [polypeptide binding]; other site 388396008132 GTP/Mg2+ binding site [chemical binding]; other site 388396008133 G4 box; other site 388396008134 G5 box; other site 388396008135 G1 box; other site 388396008136 Switch I region; other site 388396008137 G2 box; other site 388396008138 G3 box; other site 388396008139 Switch II region; other site 388396008140 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 388396008141 DNA-binding site [nucleotide binding]; DNA binding site 388396008142 FCD domain; Region: FCD; cl11656 388396008143 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 388396008144 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 388396008145 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 388396008146 active site 388396008147 intersubunit interface [polypeptide binding]; other site 388396008148 catalytic residue [active] 388396008149 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 388396008150 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 388396008151 DctM-like transporters; Region: DctM; pfam06808 388396008152 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; cl09110 388396008153 galactonate dehydratase; Provisional; Region: PRK14017 388396008154 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 388396008155 putative active site pocket [active] 388396008156 putative metal binding site [ion binding]; other site 388396008157 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 388396008158 Dehydratase family; Region: ILVD_EDD; cl00340 388396008159 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 388396008160 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 388396008161 inhibitor site; inhibition site 388396008162 active site 388396008163 dimer interface [polypeptide binding]; other site 388396008164 catalytic residue [active] 388396008165 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 388396008166 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 388396008167 Transcriptional regulators [Transcription]; Region: MarR; COG1846 388396008168 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396008169 Domain of Unknown Function with PDB structure; Region: DUF3861; pfam12977 388396008170 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 388396008171 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 388396008172 putative active site [active] 388396008173 putative FMN binding site [chemical binding]; other site 388396008174 putative substrate binding site [chemical binding]; other site 388396008175 putative catalytic residue [active] 388396008176 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 388396008177 EamA-like transporter family; Region: EamA; cl01037 388396008178 EamA-like transporter family; Region: EamA; cl01037 388396008179 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396008180 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396008181 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 388396008182 putative effector binding pocket; other site 388396008183 dimerization interface [polypeptide binding]; other site 388396008184 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 388396008185 trimer interface [polypeptide binding]; other site 388396008186 active site 388396008187 substrate binding site [chemical binding]; other site 388396008188 CoA binding site [chemical binding]; other site 388396008189 Fic/DOC family; Region: Fic; cl00960 388396008190 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 388396008191 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396008192 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 388396008193 putative substrate binding pocket [chemical binding]; other site 388396008194 putative dimerization interface [polypeptide binding]; other site 388396008195 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 388396008196 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 388396008197 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 388396008198 sugar efflux transporter; Region: 2A0120; TIGR00899 388396008199 putative substrate translocation pore; other site 388396008200 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 388396008201 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396008202 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396008203 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 388396008204 dimerization interface [polypeptide binding]; other site 388396008205 regulatory protein UhpC; Provisional; Region: PRK11663 388396008206 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 388396008207 putative substrate translocation pore; other site 388396008208 sensory histidine kinase UhpB; Provisional; Region: PRK11644 388396008209 MASE1; Region: MASE1; pfam05231 388396008210 Histidine kinase; Region: HisKA_3; pfam07730 388396008211 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 388396008212 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 388396008213 active site 388396008214 phosphorylation site [posttranslational modification] 388396008215 intermolecular recognition site; other site 388396008216 dimerization interface [polypeptide binding]; other site 388396008217 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...; Region: LuxR_C_like; cd06170 388396008218 DNA binding residues [nucleotide binding] 388396008219 dimerization interface [polypeptide binding]; other site 388396008220 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 388396008221 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 388396008222 putative substrate translocation pore; other site 388396008223 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 388396008224 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 388396008225 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 388396008226 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 388396008227 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 388396008228 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 388396008229 CHASE3 domain; Region: CHASE3; cl05000 388396008230 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396008231 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396008232 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396008233 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 388396008234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396008235 NAD(P) binding site [chemical binding]; other site 388396008236 active site 388396008237 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396008238 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396008239 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 388396008240 putative effector binding pocket; other site 388396008241 dimerization interface [polypeptide binding]; other site 388396008242 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 388396008243 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396008244 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 388396008245 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 388396008246 FeS/SAM binding site; other site 388396008247 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 388396008248 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 388396008249 Sulfatase; Region: Sulfatase; cl10460 388396008250 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 388396008251 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 388396008252 CHASE3 domain; Region: CHASE3; cl05000 388396008253 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 388396008254 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396008255 metal binding site [ion binding]; metal-binding site 388396008256 active site 388396008257 I-site; other site 388396008258 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 388396008259 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396008260 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396008261 metal binding site [ion binding]; metal-binding site 388396008262 active site 388396008263 I-site; other site 388396008264 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 388396008265 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 388396008266 N-terminal plug; other site 388396008267 ligand-binding site [chemical binding]; other site 388396008268 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 388396008269 active site 388396008270 phosphorylation site [posttranslational modification] 388396008271 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 388396008272 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 388396008273 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_mannitol; cd05567 388396008274 active site 388396008275 P-loop; other site 388396008276 phosphorylation site [posttranslational modification] 388396008277 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 388396008278 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 388396008279 putative NAD(P) binding site [chemical binding]; other site 388396008280 catalytic Zn binding site [ion binding]; other site 388396008281 Mannitol repressor; Region: MtlR; cl11450 388396008282 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396008283 Active site [active] 388396008284 putative hydrolase; Validated; Region: PRK09248 388396008285 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 388396008286 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 388396008287 putative substrate translocation pore; other site 388396008288 Major Facilitator Superfamily; Region: MFS_1; pfam07690 388396008289 Heme NO binding; Region: HNOB; pfam07700 388396008290 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 trans-...; Region: HisKA; cd00082 388396008291 dimer interface [polypeptide binding]; other site 388396008292 phosphorylation site [posttranslational modification] 388396008293 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 388396008294 ATP binding site [chemical binding]; other site 388396008295 Mg2+ binding site [ion binding]; other site 388396008296 G-X-G motif; other site 388396008297 Response regulator receiver domain; Region: Response_reg; pfam00072 388396008298 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 388396008299 active site 388396008300 phosphorylation site [posttranslational modification] 388396008301 intermolecular recognition site; other site 388396008302 dimerization interface [polypeptide binding]; other site 388396008303 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 388396008304 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; cl11420 388396008305 A functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site...; Region: Peptidase_M14-like_4; cd06231 388396008306 putative active site [active] 388396008307 Zn-binding site [ion binding]; other site 388396008308 RNA polymerase beta subunit; Provisional; Region: rpoB; CHL00207 388396008309 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; cl00102 388396008310 VcfQ bacterial pilus biogenesis protein, lectin domain; Region: lectin_VcfQ; cd06900 388396008311 putative metal binding site [ion binding]; other site 388396008312 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 388396008313 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 388396008314 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 388396008315 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 388396008316 DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 388396008317 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-...; Region: MopB_DmsA-EC; cd02770 388396008318 putative [Fe4-S4] binding site [ion binding]; other site 388396008319 putative molybdopterin cofactor binding site [chemical binding]; other site 388396008320 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-...; Region: MopB_CT_DmsA-EC; cd02794 388396008321 putative molybdopterin cofactor binding site; other site 388396008322 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 388396008323 ferredoxin-type protein NapF; Region: napF; TIGR00402 388396008324 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 388396008325 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 388396008326 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 388396008327 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 388396008328 TPR motif; other site 388396008329 binding surface 388396008330 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 388396008331 putative active site [active] 388396008332 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 388396008333 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 388396008334 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 388396008335 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 388396008336 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 388396008337 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 388396008338 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 388396008339 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 388396008340 Peptidase M3-like family, a zincin metallopeptidase, includes M3 and M32 families; Region: M3_like; cd06258 388396008341 active site 388396008342 Zn binding site [ion binding]; other site 388396008343 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 388396008344 PAS fold; Region: PAS_3; pfam08447 388396008345 putative active site [active] 388396008346 heme pocket [chemical binding]; other site 388396008347 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396008348 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396008349 Sulfate transporter family; Region: Sulfate_transp; cl00967 388396008350 Permease family; Region: Xan_ur_permease; pfam00860 388396008351 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 388396008352 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 388396008353 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396008354 Walker A/P-loop; other site 388396008355 ATP binding site [chemical binding]; other site 388396008356 Q-loop/lid; other site 388396008357 ABC transporter signature motif; other site 388396008358 Walker B; other site 388396008359 D-loop; other site 388396008360 H-loop/switch region; other site 388396008361 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 388396008362 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 388396008363 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 388396008364 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 388396008365 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 388396008366 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 388396008367 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 388396008368 Cysteine-rich domain; Region: CCG; pfam02754 388396008369 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 388396008370 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396008371 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 alpha-; Region: HCP_like; cl14655 388396008372 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 388396008373 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 388396008374 active site residue [active] 388396008375 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 388396008376 active site residue [active] 388396008377 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 388396008378 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 trans-...; Region: HisKA; cd00082 388396008379 dimer interface [polypeptide binding]; other site 388396008380 phosphorylation site [posttranslational modification] 388396008381 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 388396008382 ATP binding site [chemical binding]; other site 388396008383 G-X-G motif; other site 388396008384 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 388396008385 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 388396008386 active site 388396008387 phosphorylation site [posttranslational modification] 388396008388 intermolecular recognition site; other site 388396008389 dimerization interface [polypeptide binding]; other site 388396008390 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...; Region: LuxR_C_like; cd06170 388396008391 DNA binding residues [nucleotide binding] 388396008392 dimerization interface [polypeptide binding]; other site 388396008393 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 388396008394 NAD binding site [chemical binding]; other site 388396008395 active site 388396008396 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 388396008397 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396008398 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 388396008399 substrate binding pocket [chemical binding]; other site 388396008400 dimerization interface [polypeptide binding]; other site 388396008401 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 388396008402 domain; Region: Glyco_hydro_2; pfam00703 388396008403 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl14895 388396008404 Cache domain; Region: Cache_1; pfam02743 388396008405 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 connected by an extended linker. The...; Region: HAMP; cd06225 388396008406 dimerization interface [polypeptide binding]; other site 388396008407 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396008408 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396008409 response regulator FixJ; Provisional; Region: fixJ; PRK09390 388396008410 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...; Region: LuxR_C_like; cd06170 388396008411 DNA binding residues [nucleotide binding] 388396008412 dimerization interface [polypeptide binding]; other site 388396008413 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 388396008414 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396008415 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 388396008416 Walker A/P-loop; other site 388396008417 ATP binding site [chemical binding]; other site 388396008418 Q-loop/lid; other site 388396008419 ABC transporter signature motif; other site 388396008420 Walker B; other site 388396008421 D-loop; other site 388396008422 H-loop/switch region; other site 388396008423 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 388396008424 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 388396008425 ABC-2 type transporter; Region: ABC2_membrane; cl11417 388396008426 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 388396008427 dimer interface [polypeptide binding]; other site 388396008428 FMN binding site [chemical binding]; other site 388396008429 Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator; Region: HTH_Cfa; cd04789 388396008430 DNA binding residues [nucleotide binding] 388396008431 putative dimer interface [polypeptide binding]; other site 388396008432 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 388396008433 S-adenosylmethionine binding site [chemical binding]; other site 388396008434 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 388396008435 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396008436 Coenzyme A binding pocket [chemical binding]; other site 388396008437 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 388396008438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396008439 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 388396008440 EamA-like transporter family; Region: EamA; cl01037 388396008441 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 388396008442 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 388396008443 FMN binding site [chemical binding]; other site 388396008444 active site 388396008445 substrate binding site [chemical binding]; other site 388396008446 catalytic residue [active] 388396008447 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 388396008448 dimer interface [polypeptide binding]; other site 388396008449 active site 388396008450 metal binding site [ion binding]; metal-binding site 388396008451 glutathione binding site [chemical binding]; other site 388396008452 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 388396008453 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...; Region: OYE_like_FMN_family; cd02803 388396008454 active site 388396008455 FMN binding site [chemical binding]; other site 388396008456 substrate binding site [chemical binding]; other site 388396008457 putative catalytic residue [active] 388396008458 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 388396008459 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 388396008460 putative substrate translocation pore; other site 388396008461 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; cl11420 388396008462 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; cl11420 388396008463 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 388396008464 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 388396008465 active site residue [active] 388396008466 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 388396008467 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 388396008468 P-loop; other site 388396008469 active site 388396008470 phosphorylation site [posttranslational modification] 388396008471 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 388396008472 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 388396008473 active site 388396008474 phosphorylation site [posttranslational modification] 388396008475 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 388396008476 DNA phosphorothioation-dependent restriction protein DptF; Region: dnd_assoc_3; TIGR03238 388396008477 DNA phosphorothioation-dependent restriction protein DptG; Region: dnd_assoc_1; TIGR03236 388396008478 DNA phosphorothioation-dependent restriction protein DptH; Region: dnd_assoc_2; TIGR03237 388396008479 AAA-like domain; Region: AAA_10; pfam12846 388396008480 DGQHR domain; Region: DGQHR; cl14002 388396008481 Domain of unknown function (DUF1832); Region: DUF1832; cl07463 388396008482 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 388396008483 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396008484 Walker A/P-loop; other site 388396008485 ATP binding site [chemical binding]; other site 388396008486 Protein of unknown function (DUF2031); Region: DUF2031; cl09810 388396008487 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396008488 ABC transporter signature motif; other site 388396008489 Walker B; other site 388396008490 D-loop; other site 388396008491 H-loop/switch region; other site 388396008492 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 388396008493 Active Sites [active] 388396008494 DGQHR domain; Region: DGQHR; cl14002 388396008495 DNA phosphorothioation-associated putative methyltransferase; Region: dnd_rel_methyl; TIGR04096 388396008496 DNA phosphorothioation-associated putative methyltransferase; Region: dnd_rel_methyl; TIGR04096 388396008497 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 388396008498 transcription-repair coupling factor; Region: mfd; TIGR00580 388396008499 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 388396008500 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 388396008501 transmembrane helices; other site 388396008502 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 388396008503 Pyruvate formate lyase 1; Region: PFL1; cd01678 388396008504 coenzyme A binding site [chemical binding]; other site 388396008505 active site 388396008506 catalytic residues [active] 388396008507 glycine loop; other site 388396008508 N-acetylglucosamine-binding protein A; Reviewed; Region: PRK13211 388396008509 Chitin binding domain; Region: Chitin_bind_3; cl03871 388396008510 Protein of unknown function DUF45; Region: DUF45; cl00636 388396008511 Flagellin N-methylase; Region: FliB; cl00497 388396008512 Protein of unknown function (DUF3283); Region: DUF3283; pfam11686 388396008513 Domain of unknown function DUF28; Region: DUF28; cl00361 388396008514 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 388396008515 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 388396008516 ATP binding site [chemical binding]; other site 388396008517 Mg++ binding site [ion binding]; other site 388396008518 motif III; other site 388396008519 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 388396008520 nucleotide binding region [chemical binding]; other site 388396008521 ATP-binding site [chemical binding]; other site 388396008522 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396008523 metal binding site [ion binding]; metal-binding site 388396008524 active site 388396008525 I-site; other site 388396008526 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 388396008527 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 388396008528 putative substrate translocation pore; other site 388396008529 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 388396008530 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 388396008531 ATP binding site [chemical binding]; other site 388396008532 Mg++ binding site [ion binding]; other site 388396008533 motif III; other site 388396008534 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 388396008535 nucleotide binding region [chemical binding]; other site 388396008536 ATP-binding site [chemical binding]; other site 388396008537 DbpA RNA binding domain; Region: DbpA; pfam03880 388396008538 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396008539 metal binding site [ion binding]; metal-binding site 388396008540 active site 388396008541 I-site; other site 388396008542 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 388396008543 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 388396008544 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 388396008545 Q-loop/lid; other site 388396008546 ABC transporter signature motif; other site 388396008547 Walker B; other site 388396008548 D-loop; other site 388396008549 H-loop/switch region; other site 388396008550 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor...; Region: FhuD; cd01146 388396008551 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 388396008552 siderophore binding site; other site 388396008553 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 388396008554 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...; Region: TM_ABC_iron-siderophores_like; cd06550 388396008555 ABC-ATPase subunit interface; other site 388396008556 dimer interface [polypeptide binding]; other site 388396008557 putative PBP binding regions; other site 388396008558 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...; Region: TM_ABC_iron-siderophores_like; cd06550 388396008559 ABC-ATPase subunit interface; other site 388396008560 dimer interface [polypeptide binding]; other site 388396008561 putative PBP binding regions; other site 388396008562 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 388396008563 IucA / IucC family; Region: IucA_IucC; pfam04183 388396008564 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 388396008565 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 388396008566 Siderophore biosynthesis protein domain; Region: AlcB; pfam10331 388396008567 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 388396008568 IucA / IucC family; Region: IucA_IucC; pfam04183 388396008569 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 388396008570 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 388396008571 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 388396008572 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 388396008573 N-terminal plug; other site 388396008574 ligand-binding site [chemical binding]; other site 388396008575 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 388396008576 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 388396008577 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 388396008578 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 388396008579 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 388396008580 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396008581 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 388396008582 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 388396008583 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396008584 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396008585 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 388396008586 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 388396008587 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396008588 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396008589 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396008590 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 388396008591 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 388396008592 Predicted permease; Region: DUF318; cl00487 388396008593 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 388396008594 dimerization interface [polypeptide binding]; other site 388396008595 putative DNA binding site [nucleotide binding]; other site 388396008596 putative Zn2+ binding site [ion binding]; other site 388396008597 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 388396008598 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 388396008599 DNA binding site [nucleotide binding] 388396008600 active site 388396008601 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 388396008602 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 trans-...; Region: HisKA; cd00082 388396008603 dimer interface [polypeptide binding]; other site 388396008604 phosphorylation site [posttranslational modification] 388396008605 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 388396008606 ATP binding site [chemical binding]; other site 388396008607 Mg2+ binding site [ion binding]; other site 388396008608 G-X-G motif; other site 388396008609 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 388396008610 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 388396008611 active site 388396008612 phosphorylation site [posttranslational modification] 388396008613 intermolecular recognition site; other site 388396008614 dimerization interface [polypeptide binding]; other site 388396008615 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...; Region: trans_reg_C; cd00383 388396008616 DNA binding site [nucleotide binding] 388396008617 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 388396008618 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 388396008619 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 388396008620 active site 388396008621 phosphorylation site [posttranslational modification] 388396008622 intermolecular recognition site; other site 388396008623 dimerization interface [polypeptide binding]; other site 388396008624 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...; Region: trans_reg_C; cd00383 388396008625 DNA binding site [nucleotide binding] 388396008626 two-component sensor protein; Provisional; Region: cpxA; PRK09470 388396008627 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396008628 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 trans-...; Region: HisKA; cd00082 388396008629 dimer interface [polypeptide binding]; other site 388396008630 phosphorylation site [posttranslational modification] 388396008631 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 388396008632 ATP binding site [chemical binding]; other site 388396008633 Mg2+ binding site [ion binding]; other site 388396008634 G-X-G motif; other site 388396008635 Adenosine/AMP deaminase N-terminal; Region: A_deaminase_N; pfam08451 388396008636 SGT1, suppressor of G2 allele of SKP1; Provisional; Region: PLN03088 388396008637 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 388396008638 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 388396008639 FliG C-terminal domain; Region: FliG_C; pfam01706 388396008640 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 388396008641 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 388396008642 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 388396008643 ligand binding site [chemical binding]; other site 388396008644 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 388396008645 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 388396008646 molybdopterin cofactor binding site [chemical binding]; other site 388396008647 substrate binding site [chemical binding]; other site 388396008648 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 388396008649 molybdopterin cofactor binding site; other site 388396008650 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 388396008651 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 388396008652 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 388396008653 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 388396008654 N-terminal plug; other site 388396008655 ligand-binding site [chemical binding]; other site 388396008656 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 388396008657 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 388396008658 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 388396008659 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 388396008660 Gram-negative bacterial tonB protein; Region: TonB; cl10048 388396008661 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 388396008662 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 388396008663 Walker A/P-loop; other site 388396008664 ATP binding site [chemical binding]; other site 388396008665 Q-loop/lid; other site 388396008666 ABC transporter signature motif; other site 388396008667 Walker B; other site 388396008668 D-loop; other site 388396008669 H-loop/switch region; other site 388396008670 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 388396008671 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 388396008672 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 388396008673 Walker A/P-loop; other site 388396008674 ATP binding site [chemical binding]; other site 388396008675 Q-loop/lid; other site 388396008676 ABC transporter signature motif; other site 388396008677 Walker B; other site 388396008678 D-loop; other site 388396008679 H-loop/switch region; other site 388396008680 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 388396008681 Protein of unknown function (DUF3103); Region: DUF3103; pfam11301 388396008682 FOG: CBS domain [General function prediction only]; Region: COG0517 388396008683 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-...; Region: CBS_pair_17; cd04630 388396008684 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 388396008685 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 388396008686 putative catalytic site [active] 388396008687 putative metal binding site [ion binding]; other site 388396008688 putative phosphate binding site [ion binding]; other site 388396008689 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 388396008690 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 388396008691 FeS/SAM binding site; other site 388396008692 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 388396008693 Uncharacterized conserved protein [Function unknown]; Region: COG5361 388396008694 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 388396008695 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 388396008696 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 388396008697 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 388396008698 putative metal dependent hydrolase; Provisional; Region: PRK11598 388396008699 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 388396008700 Sulfatase; Region: Sulfatase; cl10460 388396008701 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 388396008702 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 388396008703 active site 388396008704 phosphorylation site [posttranslational modification] 388396008705 intermolecular recognition site; other site 388396008706 dimerization interface [polypeptide binding]; other site 388396008707 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...; Region: trans_reg_C; cd00383 388396008708 DNA binding site [nucleotide binding] 388396008709 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 388396008710 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 trans-...; Region: HisKA; cd00082 388396008711 dimer interface [polypeptide binding]; other site 388396008712 phosphorylation site [posttranslational modification] 388396008713 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 388396008714 ATP binding site [chemical binding]; other site 388396008715 Mg2+ binding site [ion binding]; other site 388396008716 G-X-G motif; other site 388396008717 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 388396008718 Sulfatase; Region: Sulfatase; cl10460 388396008719 Uncharacterized conserved protein [Function unknown]; Region: COG5361 388396008720 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 388396008721 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 388396008722 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396008723 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396008724 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 388396008725 dimerization interface [polypeptide binding]; other site 388396008726 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 388396008727 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 388396008728 Flp/Fap pilin component; Region: Flp_Fap; cl01585 388396008729 SAF domain; Region: SAF; cl00555 388396008730 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 388396008731 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 388396008732 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 388396008733 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly...; Region: CpaE_like; cd03111 388396008734 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 388396008735 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...; Region: VirB11-like_ATPase; cd01130 388396008736 ATP binding site [chemical binding]; other site 388396008737 Walker A motif; other site 388396008738 hexamer interface [polypeptide binding]; other site 388396008739 Walker B motif; other site 388396008740 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 388396008741 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 388396008742 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 388396008743 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 388396008744 TPR motif; other site 388396008745 binding surface 388396008746 TadE-like protein; Region: TadE; pfam07811 388396008747 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 388396008748 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 388396008749 ligand binding site [chemical binding]; other site 388396008750 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...; Region: trans_reg_C; cl00209 388396008751 DNA binding site [nucleotide binding] 388396008752 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 388396008753 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 trans-...; Region: HisKA; cd00082 388396008754 dimer interface [polypeptide binding]; other site 388396008755 phosphorylation site [posttranslational modification] 388396008756 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 388396008757 ATP binding site [chemical binding]; other site 388396008758 Mg2+ binding site [ion binding]; other site 388396008759 G-X-G motif; other site 388396008760 Response regulator receiver domain; Region: Response_reg; pfam00072 388396008761 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 388396008762 active site 388396008763 phosphorylation site [posttranslational modification] 388396008764 intermolecular recognition site; other site 388396008765 dimerization interface [polypeptide binding]; other site 388396008766 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-...; Region: MIP; cd00333 388396008767 amphipathic channel; other site 388396008768 Asn-Pro-Ala signature motifs; other site 388396008769 glycerol kinase; Provisional; Region: glpK; PRK00047 388396008770 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 388396008771 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 388396008772 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 388396008773 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396008774 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 388396008775 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 388396008776 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...; Region: trans_reg_C; cd00383 388396008777 DNA binding site [nucleotide binding] 388396008778 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 388396008779 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-...; Region: Ntn_PVA; cd00542 388396008780 active site 388396008781 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 388396008782 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396008783 metal binding site [ion binding]; metal-binding site 388396008784 active site 388396008785 I-site; other site 388396008786 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 388396008787 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396008788 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396008789 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...; Region: trans_reg_C; cd00383 388396008790 DNA binding site [nucleotide binding] 388396008791 C subunit; Region: glycerol3P_GlpC; TIGR03379 388396008792 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 alpha-; Region: HCP_like; cl14655 388396008793 Cysteine-rich domain; Region: CCG; pfam02754 388396008794 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 388396008795 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl10040 388396008796 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 388396008797 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 388396008798 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 388396008799 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396008800 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396008801 hydrogenase, Fe-only; Region: Fe_only_hydrog; TIGR02512 388396008802 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)...; Region: MopB_Formate-Dh-H; cd02753 388396008803 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 388396008804 [4Fe-4S] binding site [ion binding]; other site 388396008805 molybdopterin cofactor binding site; other site 388396008806 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)...; Region: MopB_CT_Formate-Dh_H; cd02790 388396008807 molybdopterin cofactor binding site; other site 388396008808 peptidase T; Region: peptidase-T; TIGR01882 388396008809 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 388396008810 metal binding site [ion binding]; metal-binding site 388396008811 dimer interface [polypeptide binding]; other site 388396008812 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 388396008813 non-specific DNA binding site [nucleotide binding]; other site 388396008814 salt bridge; other site 388396008815 sequence-specific DNA binding site [nucleotide binding]; other site 388396008816 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 388396008817 Protein of unknown function (DUF419); Region: DUF419; cl09948 388396008818 CHASE domain; Region: CHASE; cl01369 388396008819 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396008820 metal binding site [ion binding]; metal-binding site 388396008821 active site 388396008822 I-site; other site 388396008823 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; cl09155 388396008824 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 388396008825 non-specific DNA binding site [nucleotide binding]; other site 388396008826 salt bridge; other site 388396008827 sequence-specific DNA binding site [nucleotide binding]; other site 388396008828 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 388396008829 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...; Region: trans_reg_C; cd00383 388396008830 DNA binding site [nucleotide binding] 388396008831 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 388396008832 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 388396008833 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396008834 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 388396008835 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 388396008836 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 388396008837 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 388396008838 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 388396008839 MOSC domain; Region: MOSC; pfam03473 388396008840 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 388396008841 catalytic loop [active] 388396008842 iron binding site [ion binding]; other site 388396008843 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 388396008844 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 trans-...; Region: HisKA; cd00082 388396008845 dimer interface [polypeptide binding]; other site 388396008846 phosphorylation site [posttranslational modification] 388396008847 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 388396008848 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 388396008849 active site 388396008850 phosphorylation site [posttranslational modification] 388396008851 intermolecular recognition site; other site 388396008852 dimerization interface [polypeptide binding]; other site 388396008853 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...; Region: trans_reg_C; cd00383 388396008854 DNA binding site [nucleotide binding] 388396008855 Protein of unknown function (DUF808); Region: DUF808; cl01002 388396008856 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 388396008857 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396008858 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 388396008859 putative substrate binding pocket [chemical binding]; other site 388396008860 putative dimerization interface [polypeptide binding]; other site 388396008861 Acyltransferase family; Region: Acyl_transf_3; pfam01757 388396008862 Predicted O-acyltransferase [General function prediction only]; Region: COG3274; cl00792 388396008863 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cd00190 388396008864 cleavage site 388396008865 active site 388396008866 substrate binding sites [chemical binding]; other site 388396008867 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 388396008868 Di-iron ligands [ion binding]; other site 388396008869 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 388396008870 Protein of unknown function (DUF3389); Region: DUF3389; pfam11869 388396008871 PAS domain S-box; Region: sensory_box; TIGR00229 388396008872 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396008873 metal binding site [ion binding]; metal-binding site 388396008874 active site 388396008875 I-site; other site 388396008876 Protein of unknown function (DUF785); Region: DUF785; cl01682 388396008877 Integral membrane protein TerC family; Region: TerC; cl10468 388396008878 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 388396008879 Sel1 repeat; Region: Sel1; cl02723 388396008880 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 388396008881 putative catalytic site [active] 388396008882 putative metal binding site [ion binding]; other site 388396008883 putative phosphate binding site [ion binding]; other site 388396008884 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 388396008885 ATP cone domain; Region: ATP-cone; pfam03477 388396008886 Class III ribonucleotide reductase; Region: RNR_III; cd01675 388396008887 effector binding site; other site 388396008888 active site 388396008889 Zn binding site [ion binding]; other site 388396008890 glycine loop; other site 388396008891 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; cl14056 388396008892 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 388396008893 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 388396008894 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396008895 homodimer interface [polypeptide binding]; other site 388396008896 catalytic residue [active] 388396008897 Protein of unknown function (DUF785); Region: DUF785; cl01682 388396008898 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 388396008899 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...; Region: PBPb; cd00134 388396008900 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 388396008901 substrate binding pocket [chemical binding]; other site 388396008902 membrane-bound complex binding site; other site 388396008903 hinge residues; other site 388396008904 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 catalyze...; Region: LT_GEWL; cd00254 388396008905 N-acetyl-D-glucosamine binding site [chemical binding]; other site 388396008906 catalytic residue [active] 388396008907 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 388396008908 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...; Region: PBPb; cd00134 388396008909 substrate binding pocket [chemical binding]; other site 388396008910 membrane-bound complex binding site; other site 388396008911 hinge residues; other site 388396008912 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 catalyze...; Region: LT_GEWL; cd00254 388396008913 N-acetyl-D-glucosamine binding site [chemical binding]; other site 388396008914 catalytic residue [active] 388396008915 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 388396008916 cobyric acid synthase; Provisional; Region: PRK00784 388396008917 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 388396008918 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 388396008919 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 388396008920 catalytic triad [active] 388396008921 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 388396008922 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396008923 dimer interface [polypeptide binding]; other site 388396008924 conserved gate region; other site 388396008925 putative PBP binding loops; other site 388396008926 ABC-ATPase subunit interface; other site 388396008927 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 388396008928 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396008929 Walker A/P-loop; other site 388396008930 ATP binding site [chemical binding]; other site 388396008931 Q-loop/lid; other site 388396008932 ABC transporter signature motif; other site 388396008933 Walker B; other site 388396008934 D-loop; other site 388396008935 H-loop/switch region; other site 388396008936 TOBE domain; Region: TOBE_2; cl01440 388396008937 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 388396008938 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 388396008939 motif II; other site 388396008940 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 388396008941 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 388396008942 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 388396008943 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 388396008944 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 388396008945 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 388396008946 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 388396008947 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 388396008948 molybdopterin cofactor binding site [chemical binding]; other site 388396008949 substrate binding site [chemical binding]; other site 388396008950 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 388396008951 molybdopterin cofactor binding site; other site 388396008952 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396008953 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396008954 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 388396008955 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-...; Region: GH31; cl11402 388396008956 catalytic site [active] 388396008957 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396008958 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...; Region: trans_reg_C; cd00383 388396008959 DNA binding site [nucleotide binding] 388396008960 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 388396008961 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 388396008962 Walker A/P-loop; other site 388396008963 ATP binding site [chemical binding]; other site 388396008964 Q-loop/lid; other site 388396008965 ABC transporter signature motif; other site 388396008966 Walker B; other site 388396008967 D-loop; other site 388396008968 H-loop/switch region; other site 388396008969 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 388396008970 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 388396008971 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 388396008972 Walker A/P-loop; other site 388396008973 ATP binding site [chemical binding]; other site 388396008974 Q-loop/lid; other site 388396008975 ABC transporter signature motif; other site 388396008976 Walker B; other site 388396008977 D-loop; other site 388396008978 H-loop/switch region; other site 388396008979 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 388396008980 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 388396008981 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 388396008982 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396008983 dimer interface [polypeptide binding]; other site 388396008984 conserved gate region; other site 388396008985 putative PBP binding loops; other site 388396008986 ABC-ATPase subunit interface; other site 388396008987 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396008988 dimer interface [polypeptide binding]; other site 388396008989 conserved gate region; other site 388396008990 putative PBP binding loops; other site 388396008991 ABC-ATPase subunit interface; other site 388396008992 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 388396008993 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 388396008994 peptide binding site [polypeptide binding]; other site 388396008995 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 388396008996 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...; Region: AAA; cd00009 388396008997 Walker A motif; other site 388396008998 ATP binding site [chemical binding]; other site 388396008999 Walker B motif; other site 388396009000 arginine finger; other site 388396009001 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 388396009002 phage shock protein PspA; Provisional; Region: PRK10698 388396009003 phage shock protein A; Region: phageshock_pspA; TIGR02977 388396009004 Phage shock protein B; Region: PspB; cl05946 388396009005 PspC domain; Region: PspC; cl00864 388396009006 phage shock protein C; Region: phageshock_pspC; TIGR02978 388396009007 YcjX-like family, DUF463; Region: DUF463; cl01193 388396009008 hypothetical protein; Provisional; Region: PRK05415 388396009009 Domain of unknown function (DUF697); Region: DUF697; cl12064 388396009010 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed; Region: PRK06427 388396009011 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 388396009012 dimer interface [polypeptide binding]; other site 388396009013 substrate binding site [chemical binding]; other site 388396009014 ATP binding site [chemical binding]; other site 388396009015 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 388396009016 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 388396009017 Walker A/P-loop; other site 388396009018 ATP binding site [chemical binding]; other site 388396009019 Q-loop/lid; other site 388396009020 ABC transporter signature motif; other site 388396009021 Walker B; other site 388396009022 D-loop; other site 388396009023 H-loop/switch region; other site 388396009024 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 388396009025 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396009026 dimer interface [polypeptide binding]; other site 388396009027 conserved gate region; other site 388396009028 putative PBP binding loops; other site 388396009029 ABC-ATPase subunit interface; other site 388396009030 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 388396009031 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 388396009032 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 388396009033 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 388396009034 substrate binding site [chemical binding]; other site 388396009035 multimerization interface [polypeptide binding]; other site 388396009036 ATP binding site [chemical binding]; other site 388396009037 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- (beta-...; Region: TMP_TenI; cd00564 388396009038 thiamine phosphate binding site [chemical binding]; other site 388396009039 active site 388396009040 pyrophosphate binding site [ion binding]; other site 388396009041 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396009042 metal binding site [ion binding]; metal-binding site 388396009043 active site 388396009044 I-site; other site 388396009045 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 388396009046 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 388396009047 DsbD alpha interface [polypeptide binding]; other site 388396009048 catalytic residues [active] 388396009049 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 388396009050 Cache domain; Region: Cache_2; pfam08269 388396009051 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396009052 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396009053 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396009054 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 388396009055 ligand binding site [chemical binding]; other site 388396009056 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 388396009057 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 388396009058 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 388396009059 Zn binding site [ion binding]; other site 388396009060 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 388396009061 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 388396009062 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 388396009063 N-terminal plug; other site 388396009064 ligand-binding site [chemical binding]; other site 388396009065 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 388396009066 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 388396009067 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396009068 OsmC-like protein; Region: OsmC; cl00767 388396009069 DoxX; Region: DoxX; cl00976 388396009070 alpha-glucosidase; Provisional; Region: PRK10137 388396009071 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 388396009072 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 388396009073 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396009074 metal binding site [ion binding]; metal-binding site 388396009075 active site 388396009076 I-site; other site 388396009077 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396009078 metal binding site [ion binding]; metal-binding site 388396009079 active site 388396009080 I-site; other site 388396009081 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 388396009082 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 388396009083 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396009084 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 388396009085 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 388396009086 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 388396009087 Domain of unknown function (DUF386); Region: DUF386; cl01047 388396009088 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 388396009089 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 388396009090 domain; Region: Glyco_hydro_2; pfam00703 388396009091 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl14895 388396009092 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 388396009093 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 388396009094 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 388396009095 DNA binding site [nucleotide binding] 388396009096 domain linker motif; other site 388396009097 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 388396009098 putative dimerization interface [polypeptide binding]; other site 388396009099 putative ligand binding site [chemical binding]; other site 388396009100 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 388396009101 active site 388396009102 substrate binding site [chemical binding]; other site 388396009103 catalytic site [active] 388396009104 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 388396009105 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 388396009106 ligand binding site [chemical binding]; other site 388396009107 flexible hinge region; other site 388396009108 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_assoc; cd04587 388396009109 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 388396009110 metal binding triad; other site 388396009111 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 388396009112 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 388396009113 Sodium:solute symporter family; Region: SSF; cl00456 388396009114 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 388396009115 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 388396009116 NAD binding site [chemical binding]; other site 388396009117 homodimer interface [polypeptide binding]; other site 388396009118 active site 388396009119 substrate binding site [chemical binding]; other site 388396009120 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 388396009121 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 388396009122 dimer interface [polypeptide binding]; other site 388396009123 active site 388396009124 galactokinase; Provisional; Region: PRK05101 388396009125 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 388396009126 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 388396009127 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 388396009128 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 388396009129 active site 388396009130 catalytic residues [active] 388396009131 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 388396009132 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 388396009133 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 388396009134 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 388396009135 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 388396009136 Cache domain; Region: Cache_1; pfam02743 388396009137 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 388396009138 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 trans-...; Region: HisKA; cd00082 388396009139 dimer interface [polypeptide binding]; other site 388396009140 phosphorylation site [posttranslational modification] 388396009141 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 388396009142 ATP binding site [chemical binding]; other site 388396009143 Mg2+ binding site [ion binding]; other site 388396009144 G-X-G motif; other site 388396009145 Response regulator receiver domain; Region: Response_reg; pfam00072 388396009146 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 388396009147 active site 388396009148 phosphorylation site [posttranslational modification] 388396009149 intermolecular recognition site; other site 388396009150 dimerization interface [polypeptide binding]; other site 388396009151 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 388396009152 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 388396009153 DNA binding site [nucleotide binding] 388396009154 domain linker motif; other site 388396009155 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 388396009156 dimerization interface (closed form) [polypeptide binding]; other site 388396009157 ligand binding site [chemical binding]; other site 388396009158 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 388396009159 dimer interface [polypeptide binding]; other site 388396009160 putative tRNA-binding site [nucleotide binding]; other site 388396009161 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 388396009162 ACT domain; Region: ACT_3; cl01447 388396009163 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 388396009164 homotrimer interaction site [polypeptide binding]; other site 388396009165 putative active site [active] 388396009166 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 388396009167 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 388396009168 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396009169 metal binding site [ion binding]; metal-binding site 388396009170 active site 388396009171 I-site; other site 388396009172 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 388396009173 active site 388396009174 phosphorylation site [posttranslational modification] 388396009175 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 388396009176 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 388396009177 P-loop; other site 388396009178 active site 388396009179 phosphorylation site [posttranslational modification] 388396009180 Uncharacterized conserved protein [Function unknown]; Region: HdeD; cl01277 388396009181 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 388396009182 Mechanosensitive ion channel; Region: MS_channel; pfam00924 388396009183 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...; Region: gram_neg_porins; cd00342 388396009184 trimer interface [polypeptide binding]; other site 388396009185 eyelet of channel; other site 388396009186 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 388396009187 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 388396009188 ATP binding site [chemical binding]; other site 388396009189 Mg++ binding site [ion binding]; other site 388396009190 motif III; other site 388396009191 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 388396009192 nucleotide binding region [chemical binding]; other site 388396009193 ATP-binding site [chemical binding]; other site 388396009194 Surface antigen; Region: Bac_surface_Ag; cl03097 388396009195 BCCT family transporter; Region: BCCT; cl00569 388396009196 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 388396009197 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2...; Region: Biotinyl_lipoyl_domains; cl11404 388396009198 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 388396009199 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396009200 metal binding site [ion binding]; metal-binding site 388396009201 active site 388396009202 I-site; other site 388396009203 Late competence development protein ComFB; Region: ComFB; pfam10719 388396009204 exoribonuclease II; Provisional; Region: PRK05054 388396009205 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 388396009206 RNB domain; Region: RNB; pfam00773 388396009207 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 388396009208 helicase 45; Provisional; Region: PTZ00424 388396009209 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 388396009210 ATP binding site [chemical binding]; other site 388396009211 Mg++ binding site [ion binding]; other site 388396009212 motif III; other site 388396009213 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 388396009214 nucleotide binding region [chemical binding]; other site 388396009215 ATP-binding site [chemical binding]; other site 388396009216 DbpA RNA binding domain; Region: DbpA; pfam03880 388396009217 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 388396009218 Enoate reductase (ER)-like FMN-binding domain. Enoate reductase catalyzes the NADH-dependent reduction of carbon-carbon double bonds of several molecules, including nonactivated 2-enoates, alpha,beta-unsaturated aldehydes, cyclic ketones, and...; Region: ER_like_FMN; cd02931 388396009219 putative active site [active] 388396009220 putative FMN binding site [chemical binding]; other site 388396009221 putative substrate binding site [chemical binding]; other site 388396009222 putative catalytic residue [active] 388396009223 putative 4Fe-4S cluster binding site [ion binding]; other site 388396009224 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396009225 Helix-turn-helix domain; Region: HTH_18; pfam12833 388396009226 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396009227 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 388396009228 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 388396009229 FOG: CBS domain [General function prediction only]; Region: COG0517 388396009230 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-...; Region: CBS_pair; cl10010 388396009231 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 388396009232 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396009233 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 388396009234 putative dimerization interface [polypeptide binding]; other site 388396009235 Uncharacterised protein family (UPF0259); Region: UPF0259; cl11642 388396009236 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 388396009237 Cache domain; Region: Cache_1; pfam02743 388396009238 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396009239 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396009240 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396009241 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 388396009242 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396009243 dimer interface [polypeptide binding]; other site 388396009244 conserved gate region; other site 388396009245 putative PBP binding loops; other site 388396009246 ABC-ATPase subunit interface; other site 388396009247 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...; Region: PBPb; cd00134 388396009248 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 388396009249 substrate binding pocket [chemical binding]; other site 388396009250 membrane-bound complex binding site; other site 388396009251 hinge residues; other site 388396009252 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396009253 dimer interface [polypeptide binding]; other site 388396009254 conserved gate region; other site 388396009255 putative PBP binding loops; other site 388396009256 ABC-ATPase subunit interface; other site 388396009257 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 388396009258 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 388396009259 Walker A/P-loop; other site 388396009260 ATP binding site [chemical binding]; other site 388396009261 Q-loop/lid; other site 388396009262 ABC transporter signature motif; other site 388396009263 Walker B; other site 388396009264 D-loop; other site 388396009265 H-loop/switch region; other site 388396009266 NeuB family; Region: NeuB; cl00496 388396009267 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 388396009268 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 388396009269 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 388396009270 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 388396009271 putative active site [active] 388396009272 putative metal-binding site [ion binding]; other site 388396009273 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 388396009274 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 388396009275 active site 388396009276 metal binding site [ion binding]; metal-binding site 388396009277 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 388396009278 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396009279 metal binding site [ion binding]; metal-binding site 388396009280 active site 388396009281 I-site; other site 388396009282 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 388396009283 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 388396009284 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...; Region: Sigma70_r4; cd06171 388396009285 DNA binding residues [nucleotide binding] 388396009286 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 388396009287 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 388396009288 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 388396009289 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 388396009290 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 388396009291 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396009292 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; cl09110 388396009293 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 388396009294 Cation transport protein; Region: TrkH; cl10514 388396009295 Cation transport protein; Region: TrkH; cl10514 388396009296 Mechanosensitive ion channel; Region: MS_channel; pfam00924 388396009297 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 388396009298 Cytochrome C'; Region: Cytochrom_C_2; cl01610 388396009299 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 388396009300 nudix motif; other site 388396009301 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 388396009302 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...; Region: Aldo_ket_red; cd06660 388396009303 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 388396009304 active site 388396009305 catalytic tetrad [active] 388396009306 Dihydroorotase [Nucleotide transport and metabolism]; Region: PyrC; COG0418 388396009307 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 388396009308 active site 388396009309 substrate binding pocket [chemical binding]; other site 388396009310 dimer interface [polypeptide binding]; other site 388396009311 Domain of unknown function; Region: DUF331; cl01149 388396009312 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 388396009313 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 388396009314 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 388396009315 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; cl01562 388396009316 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 388396009317 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 388396009318 NAD(P) binding site [chemical binding]; other site 388396009319 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 388396009320 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), 8-amino-7-...; Region: KBL_like; cd06454 388396009321 substrate-cofactor binding pocket; other site 388396009322 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396009323 catalytic residue [active] 388396009324 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396009325 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396009326 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 388396009327 putative effector binding pocket; other site 388396009328 dimerization interface [polypeptide binding]; other site 388396009329 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396009330 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 388396009331 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-...; Region: CBS_pair; cl10010 388396009332 DHHA2 domain; Region: DHHA2; pfam02833 388396009333 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 388396009334 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 388396009335 Competence protein; Region: Competence; cl00471 388396009336 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 388396009337 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 388396009338 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 388396009339 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 388396009340 Walker A/P-loop; other site 388396009341 ATP binding site [chemical binding]; other site 388396009342 Q-loop/lid; other site 388396009343 ABC transporter signature motif; other site 388396009344 Walker B; other site 388396009345 D-loop; other site 388396009346 H-loop/switch region; other site 388396009347 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 388396009348 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 388396009349 Trm112p-like protein; Region: Trm112p; cl01066 388396009350 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 388396009351 Ligand binding site [chemical binding]; other site 388396009352 oligomer interface [polypeptide binding]; other site 388396009353 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 388396009354 putative active site [active] 388396009355 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 388396009356 S-adenosylmethionine binding site [chemical binding]; other site 388396009357 KicB killing factor; Region: KicB; cl11468 388396009358 MukE-like family; Region: MukE; cl11471 388396009359 cell division protein MukB; Provisional; Region: mukB; PRK04863 388396009360 MukB N-terminal; Region: MukB; pfam04310 388396009361 DNA-J related protein; Region: DNAJ_related; pfam12339 388396009362 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...; Region: DnaJ; cd06257 388396009363 HSP70 interaction site [polypeptide binding]; other site 388396009364 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 388396009365 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 trans-...; Region: HisKA; cl00080 388396009366 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 388396009367 ATP binding site [chemical binding]; other site 388396009368 Mg2+ binding site [ion binding]; other site 388396009369 G-X-G motif; other site 388396009370 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 388396009371 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 388396009372 active site 388396009373 phosphorylation site [posttranslational modification] 388396009374 intermolecular recognition site; other site 388396009375 dimerization interface [polypeptide binding]; other site 388396009376 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...; Region: trans_reg_C; cd00383 388396009377 DNA binding site [nucleotide binding] 388396009378 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 388396009379 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 388396009380 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...; Region: PTS_IIB_glc; cd00212 388396009381 active site turn [active] 388396009382 phosphorylation site [posttranslational modification] 388396009383 NnrS protein; Region: NnrS; cl01258 388396009384 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 388396009385 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 388396009386 Predicted O-acyltransferase [General function prediction only]; Region: COG3274; cl00792 388396009387 Acyltransferase family; Region: Acyl_transf_3; pfam01757 388396009388 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 388396009389 Outer membrane efflux protein; Region: OEP; pfam02321 388396009390 Outer membrane efflux protein; Region: OEP; pfam02321 388396009391 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 388396009392 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 388396009393 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 388396009394 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 388396009395 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396009396 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396009397 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396009398 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 388396009399 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396009400 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396009401 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396009402 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396009403 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396009404 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 388396009405 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 388396009406 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 388396009407 active sites [active] 388396009408 tetramer interface [polypeptide binding]; other site 388396009409 urocanate hydratase; Provisional; Region: PRK05414 388396009410 urocanate hydratase; Region: hutU; TIGR01228 388396009411 Arginase family; Region: Arginase; cl00306 388396009412 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 388396009413 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 388396009414 active site 388396009415 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 388396009416 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 388396009417 DNA-binding site [nucleotide binding]; DNA binding site 388396009418 UTRA domain; Region: UTRA; cl06649 388396009419 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; cl12011 388396009420 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 388396009421 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 388396009422 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 388396009423 catalytic residues [active] 388396009424 hinge region; other site 388396009425 alpha helical domain; other site 388396009426 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 388396009427 transcription-repair coupling factor; Provisional; Region: PRK10689 388396009428 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 388396009429 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 388396009430 ATP binding site [chemical binding]; other site 388396009431 putative Mg++ binding site [ion binding]; other site 388396009432 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 388396009433 nucleotide binding region [chemical binding]; other site 388396009434 ATP-binding site [chemical binding]; other site 388396009435 TRCF domain; Region: TRCF; pfam03461 388396009436 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 388396009437 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 388396009438 FtsX-like permease family; Region: FtsX; pfam02687 388396009439 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 388396009440 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 388396009441 Walker A/P-loop; other site 388396009442 ATP binding site [chemical binding]; other site 388396009443 Q-loop/lid; other site 388396009444 ABC transporter signature motif; other site 388396009445 Walker B; other site 388396009446 D-loop; other site 388396009447 H-loop/switch region; other site 388396009448 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 388396009449 FtsX-like permease family; Region: FtsX; pfam02687 388396009450 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 388396009451 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 388396009452 N-glycosyltransferase; Provisional; Region: PRK11204 388396009453 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 388396009454 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 388396009455 DXD motif; other site 388396009456 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 388396009457 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 388396009458 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 388396009459 active site 388396009460 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 388396009461 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 388396009462 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 388396009463 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 388396009464 putative active site [active] 388396009465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396009466 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 388396009467 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 388396009468 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 388396009469 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 388396009470 Surface antigen; Region: Surface_Ag_2; cl01155 388396009471 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...; Region: trans_reg_C; cl00209 388396009472 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 388396009473 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396009474 metal binding site [ion binding]; metal-binding site 388396009475 active site 388396009476 I-site; other site 388396009477 CHASE domain; Region: CHASE; cl01369 388396009478 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396009479 metal binding site [ion binding]; metal-binding site 388396009480 active site 388396009481 I-site; other site 388396009482 DNA polymerase II large subunit; Provisional; Region: PRK14714 388396009483 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 388396009484 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 388396009485 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 388396009486 DXD motif; other site 388396009487 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 388396009488 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396009489 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396009490 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 388396009491 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 388396009492 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 388396009493 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 388396009494 active site 388396009495 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 388396009496 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 388396009497 active site 388396009498 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 388396009499 RNA/DNA binding site [nucleotide binding]; other site 388396009500 RRM dimerization site [polypeptide binding]; other site 388396009501 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...; Region: gram_neg_porins; cd00342 388396009502 trimer interface [polypeptide binding]; other site 388396009503 eyelet of channel; other site 388396009504 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 388396009505 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 388396009506 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 388396009507 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 388396009508 pyruvate kinase; Provisional; Region: PRK05826 388396009509 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; cl09155 388396009510 domain interfaces; other site 388396009511 active site 388396009512 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 388396009513 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; cl14056 388396009514 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 388396009515 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 388396009516 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 388396009517 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 388396009518 tetramer interface [polypeptide binding]; other site 388396009519 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396009520 catalytic residue [active] 388396009521 regulatory ATPase RavA; Provisional; Region: PRK13531 388396009522 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...; Region: AAA; cd00009 388396009523 Walker A motif; other site 388396009524 ATP binding site [chemical binding]; other site 388396009525 Walker B motif; other site 388396009526 arginine finger; other site 388396009527 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 388396009528 hypothetical protein; Provisional; Region: yieM; PRK10997 388396009529 VWA YIEM 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 para-...; Region: VWA_YIEM_type; cd01462 388396009530 metal ion-dependent adhesion site (MIDAS); other site 388396009531 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 388396009532 Protein of unknown function (DUF3069); Region: DUF3069; pfam11269 388396009533 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 388396009534 ligand binding site [chemical binding]; other site 388396009535 CreA protein; Region: CreA; cl01154 388396009536 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 388396009537 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 388396009538 Zn2+ binding site [ion binding]; other site 388396009539 Mg2+ binding site [ion binding]; other site 388396009540 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 388396009541 Protein of unknown function (DUF3233); Region: DUF3233; pfam11557 388396009542 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 388396009543 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 388396009544 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 388396009545 Walker A/P-loop; other site 388396009546 ATP binding site [chemical binding]; other site 388396009547 Q-loop/lid; other site 388396009548 ABC transporter signature motif; other site 388396009549 Walker B; other site 388396009550 D-loop; other site 388396009551 H-loop/switch region; other site 388396009552 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 388396009553 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 388396009554 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 388396009555 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 388396009556 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases...; Region: YlqF; cd01856 388396009557 GTP/Mg2+ binding site [chemical binding]; other site 388396009558 G4 box; other site 388396009559 G5 box; other site 388396009560 G1 box; other site 388396009561 Switch I region; other site 388396009562 G2 box; other site 388396009563 G3 box; other site 388396009564 Switch II region; other site 388396009565 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 388396009566 Domain of unknown function DUF11; Region: DUF11; cl03172 388396009567 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 388396009568 ligand binding site [chemical binding]; other site 388396009569 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 388396009570 ligand binding site [chemical binding]; other site 388396009571 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 388396009572 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 388396009573 DEAD-like helicases superfamily; Region: DEXDc; smart00487 388396009574 ATP binding site [chemical binding]; other site 388396009575 Mg++ binding site [ion binding]; other site 388396009576 motif III; other site 388396009577 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 388396009578 nucleotide binding region [chemical binding]; other site 388396009579 ATP-binding site [chemical binding]; other site 388396009580 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 388396009581 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 388396009582 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 388396009583 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 388396009584 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 388396009585 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 388396009586 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 388396009587 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 388396009588 Domain of unknown function (DUF3404); Region: DUF3404; pfam11884 388396009589 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 388396009590 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 trans-...; Region: HisKA; cd00082 388396009591 dimer interface [polypeptide binding]; other site 388396009592 phosphorylation site [posttranslational modification] 388396009593 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 388396009594 ATP binding site [chemical binding]; other site 388396009595 Mg2+ binding site [ion binding]; other site 388396009596 G-X-G motif; other site 388396009597 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 388396009598 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 388396009599 active site 388396009600 phosphorylation site [posttranslational modification] 388396009601 intermolecular recognition site; other site 388396009602 dimerization interface [polypeptide binding]; other site 388396009603 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...; Region: trans_reg_C; cd00383 388396009604 DNA binding site [nucleotide binding] 388396009605 Protein of unknown function (DUF2861); Region: DUF2861; pfam11060 388396009606 Uncharacterised protein family (UPF0181); Region: UPF0181; cl11477 388396009607 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 388396009608 MPT binding site; other site 388396009609 trimer interface [polypeptide binding]; other site 388396009610 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 388396009611 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396009612 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 388396009613 PAS domain S-box; Region: sensory_box; TIGR00229 388396009614 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396009615 metal binding site [ion binding]; metal-binding site 388396009616 active site 388396009617 I-site; other site 388396009618 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 388396009619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396009620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 388396009621 Sporulation related domain; Region: SPOR; cl10051 388396009622 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 388396009623 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 388396009624 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 388396009625 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 388396009626 DNA binding site [nucleotide binding] 388396009627 dimer interface [polypeptide binding]; other site 388396009628 Int/Topo IB signature motif; other site 388396009629 active site 388396009630 Protein of unknown function (DUF3319); Region: DUF3319; pfam11782 388396009631 translation initiation factor Sui1; Validated; Region: PRK06824 388396009632 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cd00474 388396009633 Predicted RNA interaction site [nucleotide binding]; other site 388396009634 putative binding site; other site 388396009635 Mutations affecting start-site selection; other site 388396009636 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 388396009637 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 388396009638 PhnA protein; Region: PhnA; pfam03831 388396009639 NAD(P) transhydrogenase beta subunit; Region: PNTB; cl00566 388396009640 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 388396009641 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 388396009642 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 388396009643 Transcriptional activator HlyU; Region: HlyU; cl02273 388396009644 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 388396009645 ligand binding site [chemical binding]; other site 388396009646 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 388396009647 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 388396009648 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 388396009649 ABC-2 type transporter; Region: ABC2_membrane; cl11417 388396009650 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 388396009651 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 388396009652 Outer membrane efflux protein; Region: OEP; pfam02321 388396009653 Outer membrane efflux protein; Region: OEP; pfam02321 388396009654 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 388396009655 Protein of unknown function (DUF406); Region: DUF406; cl11449 388396009656 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 protein...; Region: CSP_CDS; cd04458 388396009657 DNA-binding site [nucleotide binding]; DNA binding site 388396009658 RNA-binding motif; other site 388396009659 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396009660 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396009661 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 388396009662 putative effector binding pocket; other site 388396009663 dimerization interface [polypeptide binding]; other site 388396009664 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396009665 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 388396009666 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 388396009667 active site 388396009668 (T/H)XGH motif; other site 388396009669 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 388396009670 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...; Region: NAD_synthase; cd00553 388396009671 homodimer interface [polypeptide binding]; other site 388396009672 NAD binding pocket [chemical binding]; other site 388396009673 ATP binding pocket [chemical binding]; other site 388396009674 Mg binding site [ion binding]; other site 388396009675 active-site loop [active] 388396009676 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 388396009677 hypothetical protein; Provisional; Region: PRK11239 388396009678 Protein of unknown function, DUF480; Region: DUF480; cl01209 388396009679 Polymer-forming cytoskeletal; Region: Bactofilin; cl09137 388396009680 Protein of unknown function (DUF496); Region: DUF496; cl09955 388396009681 PAS fold; Region: PAS; pfam00989 388396009682 Response regulator receiver domain; Region: Response_reg; pfam00072 388396009683 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 388396009684 active site 388396009685 phosphorylation site [posttranslational modification] 388396009686 intermolecular recognition site; other site 388396009687 dimerization interface [polypeptide binding]; other site 388396009688 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 388396009689 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 388396009690 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 388396009691 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 388396009692 putative substrate translocation pore; other site 388396009693 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 388396009694 Predicted dehydrogenase [General function prediction only]; Region: COG0579 388396009695 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396009696 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 388396009697 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 388396009698 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396009699 Walker A/P-loop; other site 388396009700 ATP binding site [chemical binding]; other site 388396009701 Q-loop/lid; other site 388396009702 ABC transporter signature motif; other site 388396009703 Walker B; other site 388396009704 D-loop; other site 388396009705 H-loop/switch region; other site 388396009706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 388396009707 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 388396009708 Pas factor saposin fold; Region: Pas_Saposin; pfam09016 388396009709 Beta/Gamma crystallin; Region: Crystall; cl02528 388396009710 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396009711 Fic/DOC family; Region: Fic; cl00960 388396009712 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 388396009713 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396009714 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 388396009715 CcdB protein; Region: CcdB; cl03380 388396009716 Restriction endonuclease; Region: Mrr_cat; cl00747 388396009717 Competence protein CoiA-like family; Region: CoiA; cl11541 388396009718 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 388396009719 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 388396009720 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 388396009721 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 388396009722 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 388396009723 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; cl11391 388396009724 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 388396009725 motif II; other site 388396009726 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396009727 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. 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...; Region: ASCH_Ef3133_like; cd06553 388396009728 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 388396009729 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. 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...; Region: ASCH_Ef3133_like; cd06553 388396009730 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 388396009731 Phd_YefM; Region: PhdYeFM; cl09153 388396009732 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 388396009733 classical (c) SDRs; Region: SDR_c; cd05233 388396009734 short chain dehydrogenase; Provisional; Region: PRK06123 388396009735 NAD(P) binding site [chemical binding]; other site 388396009736 active site 388396009737 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 388396009738 LysE type translocator; Region: LysE; cl00565 388396009739 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; cd05120 388396009740 active site 388396009741 substrate binding site [chemical binding]; other site 388396009742 ATP binding site [chemical binding]; other site 388396009743 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396009744 Active site [active] 388396009745 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396009746 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 388396009747 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 388396009748 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 388396009749 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. 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...; Region: ASCH_Ef3133_like; cd06553 388396009750 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl01740 388396009751 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 388396009752 LysE type translocator; Region: LysE; cl00565 388396009753 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 388396009754 putative DNA binding site [nucleotide binding]; other site 388396009755 putative Zn2+ binding site [ion binding]; other site 388396009756 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396009757 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 388396009758 catalytic triad [active] 388396009759 conserved cis-peptide bond; other site 388396009760 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 388396009761 Competence protein CoiA-like family; Region: CoiA; cl11541 388396009762 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396009763 Competence protein CoiA-like family; Region: CoiA; cl11541 388396009764 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396009765 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 388396009766 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...; Region: HNHc; cl00083 388396009767 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396009768 ABC transporter signature motif; other site 388396009769 Walker B; other site 388396009770 D-loop; other site 388396009771 H-loop/switch region; other site 388396009772 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396009773 Restriction endonuclease; Region: Mrr_cat; cl00747 388396009774 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; cd05120 388396009775 active site 388396009776 substrate binding site [chemical binding]; other site 388396009777 ATP binding site [chemical binding]; other site 388396009778 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396009779 integron integrase; Region: integrase_gron; TIGR02249 388396009780 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 388396009781 DNA binding site [nucleotide binding] 388396009782 Int/Topo IB signature motif; other site 388396009783 active site 388396009784 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 388396009785 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 388396009786 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 388396009787 CoenzymeA binding site [chemical binding]; other site 388396009788 subunit interaction site [polypeptide binding]; other site 388396009789 PHB binding site; other site 388396009790 Protein of unknown function (DUF445); Region: DUF445; pfam04286 388396009791 Cache domain; Region: Cache_1; pfam02743 388396009792 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396009793 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396009794 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396009795 MoxR-like ATPases [General function prediction only]; Region: COG0714 388396009796 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...; Region: AAA; cd00009 388396009797 Walker A motif; other site 388396009798 ATP binding site [chemical binding]; other site 388396009799 Walker B motif; other site 388396009800 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396009801 arginine finger; other site 388396009802 Protein of unknown function DUF58; Region: DUF58; pfam01882 388396009803 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 388396009804 metal ion-dependent adhesion site (MIDAS); other site 388396009805 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 para-...; Region: vWA_BatA_type; cd01467 388396009806 metal ion-dependent adhesion site (MIDAS); other site 388396009807 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 388396009808 metal ion-dependent adhesion site (MIDAS); other site 388396009809 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 388396009810 transaldolase-like protein; Provisional; Region: PTZ00411 388396009811 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 388396009812 active site 388396009813 dimer interface [polypeptide binding]; other site 388396009814 catalytic residue [active] 388396009815 transketolase; Reviewed; Region: PRK12753 388396009816 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 388396009817 TPP-binding site [chemical binding]; other site 388396009818 dimer interface [polypeptide binding]; other site 388396009819 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 388396009820 PYR/PP interface [polypeptide binding]; other site 388396009821 dimer interface [polypeptide binding]; other site 388396009822 TPP binding site [chemical binding]; other site 388396009823 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 388396009824 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 388396009825 putative acyl-acceptor binding pocket; other site 388396009826 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...; Region: ZnMc; cl00064 388396009827 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...; Region: ZnMc; cl00064 388396009828 active site 388396009829 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 388396009830 dimer interface [polypeptide binding]; other site 388396009831 FMN binding site [chemical binding]; other site 388396009832 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396009833 metal binding site [ion binding]; metal-binding site 388396009834 active site 388396009835 I-site; other site 388396009836 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 388396009837 trimer interface [polypeptide binding]; other site 388396009838 active site 388396009839 substrate binding site [chemical binding]; other site 388396009840 CoA binding site [chemical binding]; other site 388396009841 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 388396009842 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 the...; Region: IMPDH; cd00381 388396009843 active site 388396009844 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, 2-...; Region: ribokinase_pfkB_like; cl00192 388396009845 substrate binding site [chemical binding]; other site 388396009846 ATP binding site [chemical binding]; other site 388396009847 PPIC-type PPIASE domain; Region: Rotamase; cl08278 388396009848 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; cl00256 388396009849 Response regulator receiver domain; Region: Response_reg; pfam00072 388396009850 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 388396009851 active site 388396009852 phosphorylation site [posttranslational modification] 388396009853 intermolecular recognition site; other site 388396009854 dimerization interface [polypeptide binding]; other site 388396009855 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 388396009856 putative active site [active] 388396009857 putative catalytic site [active] 388396009858 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 388396009859 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 388396009860 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 388396009861 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 388396009862 non-specific DNA binding site [nucleotide binding]; other site 388396009863 salt bridge; other site 388396009864 sequence-specific DNA binding site [nucleotide binding]; other site 388396009865 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 L-...; Region: GCS_H; cd06848 388396009866 lipoyl attachment site [posttranslational modification]; other site 388396009867 glycine dehydrogenase; Provisional; Region: PRK05367 388396009868 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...; Region: GDC-P; cd00613 388396009869 tetramer interface [polypeptide binding]; other site 388396009870 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396009871 catalytic residue [active] 388396009872 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...; Region: GDC-P; cd00613 388396009873 tetramer interface [polypeptide binding]; other site 388396009874 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396009875 catalytic residue [active] 388396009876 Predicted transcriptional regulator [Transcription]; Region: COG2378 388396009877 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 388396009878 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 388396009879 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 388396009880 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 388396009881 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 388396009882 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 388396009883 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 388396009884 active site 388396009885 phosphorylation site [posttranslational modification] 388396009886 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 388396009887 P-loop; other site 388396009888 active site 388396009889 phosphorylation site [posttranslational modification] 388396009890 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 388396009891 Phosphomannose isomerase type I; Region: PMI_typeI; pfam01238 388396009892 mannose-6-phosphate isomerase; Provisional; Region: PRK15131; cl14659 388396009893 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 388396009894 dimerization domain swap beta strand [polypeptide binding]; other site 388396009895 regulatory protein interface [polypeptide binding]; other site 388396009896 active site 388396009897 regulatory phosphorylation site [posttranslational modification]; other site 388396009898 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 388396009899 active site 388396009900 phosphorylation site [posttranslational modification] 388396009901 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 388396009902 P-loop; other site 388396009903 active site 388396009904 phosphorylation site [posttranslational modification] 388396009905 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 388396009906 active site 388396009907 phosphorylation site [posttranslational modification] 388396009908 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 388396009909 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 388396009910 P-loop; other site 388396009911 active site 388396009912 phosphorylation site [posttranslational modification] 388396009913 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 388396009914 nucleophile elbow; other site 388396009915 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 388396009916 Surface antigen; Region: Bac_surface_Ag; cl03097 388396009917 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]; Region: COG3456 388396009918 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 388396009919 phosphopeptide binding site; other site 388396009920 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 388396009921 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 388396009922 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 388396009923 putative peptidase; Provisional; Region: PRK11649 388396009924 Peptidase family M23; Region: Peptidase_M23; pfam01551 388396009925 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 388396009926 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 388396009927 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 388396009928 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 388396009929 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 388396009930 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 388396009931 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396009932 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 388396009933 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 388396009934 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 388396009935 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 388396009936 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 388396009937 Protein of unknown function (DUF877); Region: DUF877; pfam05943 388396009938 Protein of unknown function (DUF770); Region: DUF770; cl01402 388396009939 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 388396009940 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 388396009941 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 388396009942 Catalytic domain of Protein Kinases; Region: PKc; cd00180 388396009943 active site 388396009944 ATP binding site [chemical binding]; other site 388396009945 substrate binding site [chemical binding]; other site 388396009946 activation loop (A-loop); other site 388396009947 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 388396009948 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 388396009949 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 388396009950 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 388396009951 Protein of unknown function (DUF796); Region: DUF796; cl01226 388396009952 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 388396009953 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...; Region: AAA; cd00009 388396009954 Walker A motif; other site 388396009955 ATP binding site [chemical binding]; other site 388396009956 Walker B motif; other site 388396009957 arginine finger; other site 388396009958 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...; Region: AAA; cd00009 388396009959 Walker A motif; other site 388396009960 ATP binding site [chemical binding]; other site 388396009961 Walker B motif; other site 388396009962 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 388396009963 GAF domain; Region: GAF; cl00853 388396009964 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 388396009965 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...; Region: AAA; cd00009 388396009966 Walker A motif; other site 388396009967 ATP binding site [chemical binding]; other site 388396009968 Walker B motif; other site 388396009969 arginine finger; other site 388396009970 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 388396009971 ligand binding site [chemical binding]; other site 388396009972 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 388396009973 ligand binding site [chemical binding]; other site 388396009974 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 388396009975 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; cl09110 388396009976 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; cl09110 388396009977 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396009978 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396009979 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 388396009980 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 388396009981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396009982 HopJ type III effector protein; Region: HopJ; pfam08888 388396009983 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396009984 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 388396009985 putative substrate translocation pore; other site 388396009986 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396009987 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396009988 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 388396009989 dimerization interface [polypeptide binding]; other site 388396009990 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 388396009991 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 388396009992 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 388396009993 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 388396009994 active site 388396009995 phosphorylation site [posttranslational modification] 388396009996 intermolecular recognition site; other site 388396009997 dimerization interface [polypeptide binding]; other site 388396009998 LytTr DNA-binding domain; Region: LytTR; cl04498 388396009999 Histidine kinase; Region: His_kinase; pfam06580 388396010000 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 388396010001 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 388396010002 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 388396010003 FtsX-like permease family; Region: FtsX; pfam02687 388396010004 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 388396010005 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 388396010006 Walker A/P-loop; other site 388396010007 ATP binding site [chemical binding]; other site 388396010008 Q-loop/lid; other site 388396010009 ABC transporter signature motif; other site 388396010010 Walker B; other site 388396010011 D-loop; other site 388396010012 H-loop/switch region; other site 388396010013 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 388396010014 Coenzyme A binding pocket [chemical binding]; other site 388396010015 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396010016 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 388396010017 hypothetical protein; Validated; Region: PRK09071 388396010018 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 388396010019 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 388396010020 Fusaric acid resistance protein family; Region: FUSC; pfam04632 388396010021 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 388396010022 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396010023 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396010024 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 388396010025 dimerization interface [polypeptide binding]; other site 388396010026 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 388396010027 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 388396010028 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 388396010029 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 388396010030 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 388396010031 S-adenosylmethionine binding site [chemical binding]; other site 388396010032 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 388396010033 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 388396010034 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 388396010035 catalytic residue [active] 388396010036 biotin synthase; Provisional; Region: PRK15108 388396010037 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 388396010038 FeS/SAM binding site; other site 388396010039 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 388396010040 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 388396010041 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 388396010042 inhibitor-cofactor binding pocket; inhibition site 388396010043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396010044 catalytic residue [active] 388396010045 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396010046 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 388396010047 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 388396010048 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 388396010049 putative aromatic amino acid binding site; other site 388396010050 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 388396010051 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...; Region: AAA; cd00009 388396010052 Walker A motif; other site 388396010053 ATP binding site [chemical binding]; other site 388396010054 Walker B motif; other site 388396010055 arginine finger; other site 388396010056 Protein of unknown function (DUF523); Region: DUF523; cl00733 388396010057 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 388396010058 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 388396010059 DNA photolyase; Region: DNA_photolyase; pfam00875 388396010060 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 388396010061 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 388396010062 metal binding site [ion binding]; metal-binding site 388396010063 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 388396010064 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 388396010065 Protein of unknown function, DUF399; Region: DUF399; cl01139 388396010066 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 388396010067 Phd_YefM; Region: PhdYeFM; cl09153 388396010068 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 388396010069 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 388396010070 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 388396010071 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 388396010072 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 388396010073 S-adenosylmethionine binding site [chemical binding]; other site 388396010074 Protein of unknown function (DUF1365); Region: DUF1365; cl01388 388396010075 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 388396010076 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396010077 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396010078 short chain dehydrogenase; Provisional; Region: PRK06101 388396010079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 388396010080 NAD(P) binding site [chemical binding]; other site 388396010081 active site 388396010082 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 388396010083 Transcriptional activator [Transcription]; Region: ChrR; COG3806 388396010084 Cupin domain; Region: Cupin_2; cl09118 388396010085 RNA polymerase sigma factor; Provisional; Region: PRK11924 388396010086 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 388396010087 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...; Region: Sigma70_r4; cd06171 388396010088 DNA binding residues [nucleotide binding] 388396010089 Cytochrome c; Region: Cytochrom_C; cl11414 388396010090 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 388396010091 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 388396010092 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 388396010093 catalytic residue [active] 388396010094 Uncharacterized protein conserved in bacteria (DUF2257); Region: DUF2257; cl01794 388396010095 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 388396010096 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 388396010097 putative substrate translocation pore; other site 388396010098 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396010099 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396010100 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 388396010101 putative effector binding pocket; other site 388396010102 dimerization interface [polypeptide binding]; other site 388396010103 LysE type translocator; Region: LysE; cl00565 388396010104 putative hydrolase; Validated; Region: PRK09248 388396010105 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 388396010106 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 388396010107 Gram-negative bacterial tonB protein; Region: TonB; cl10048 388396010108 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 388396010109 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 388396010110 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 388396010111 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 388396010112 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 388396010113 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...; Region: TM_ABC_iron-siderophores_like; cd06550 388396010114 ABC-ATPase subunit interface; other site 388396010115 dimer interface [polypeptide binding]; other site 388396010116 putative PBP binding regions; other site 388396010117 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...; Region: TM_ABC_iron-siderophores_like; cd06550 388396010118 ABC-ATPase subunit interface; other site 388396010119 dimer interface [polypeptide binding]; other site 388396010120 putative PBP binding regions; other site 388396010121 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 388396010122 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor...; Region: FhuD; cd01146 388396010123 siderophore binding site; other site 388396010124 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 388396010125 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 388396010126 Walker A/P-loop; other site 388396010127 ATP binding site [chemical binding]; other site 388396010128 Q-loop/lid; other site 388396010129 ABC transporter signature motif; other site 388396010130 Walker B; other site 388396010131 D-loop; other site 388396010132 H-loop/switch region; other site 388396010133 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 388396010134 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 388396010135 N-terminal plug; other site 388396010136 ligand-binding site [chemical binding]; other site 388396010137 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 388396010138 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 388396010139 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 388396010140 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 388396010141 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 388396010142 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...; Region: PTS_IIB_glc; cd00212 388396010143 active site turn [active] 388396010144 phosphorylation site [posttranslational modification] 388396010145 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 388396010146 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396010147 Walker A/P-loop; other site 388396010148 ATP binding site [chemical binding]; other site 388396010149 Q-loop/lid; other site 388396010150 ABC transporter signature motif; other site 388396010151 Walker B; other site 388396010152 D-loop; other site 388396010153 H-loop/switch region; other site 388396010154 ABC transporter; Region: ABC_tran_2; pfam12848 388396010155 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 388396010156 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 388396010157 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 388396010158 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 388396010159 putative substrate translocation pore; other site 388396010160 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 388396010161 active site 388396010162 metal binding site [ion binding]; metal-binding site 388396010163 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 388396010164 trimer interface [polypeptide binding]; other site 388396010165 active site 388396010166 substrate binding site [chemical binding]; other site 388396010167 CoA binding site [chemical binding]; other site 388396010168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396010169 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396010170 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 388396010171 putative effector binding pocket; other site 388396010172 dimerization interface [polypeptide binding]; other site 388396010173 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396010174 Helix-turn-helix domain; Region: HTH_18; pfam12833 388396010175 Acetokinase family; Region: Acetate_kinase; cl01029 388396010176 Response regulator receiver domain; Region: Response_reg; pfam00072 388396010177 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 388396010178 active site 388396010179 phosphorylation site [posttranslational modification] 388396010180 intermolecular recognition site; other site 388396010181 dimerization interface [polypeptide binding]; other site 388396010182 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 388396010183 PAS fold; Region: PAS_4; pfam08448 388396010184 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396010185 metal binding site [ion binding]; metal-binding site 388396010186 active site 388396010187 I-site; other site 388396010188 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 388396010189 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396010190 dimer interface [polypeptide binding]; other site 388396010191 conserved gate region; other site 388396010192 putative PBP binding loops; other site 388396010193 ABC-ATPase subunit interface; other site 388396010194 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396010195 dimer interface [polypeptide binding]; other site 388396010196 conserved gate region; other site 388396010197 putative PBP binding loops; other site 388396010198 ABC-ATPase subunit interface; other site 388396010199 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 388396010200 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 388396010201 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 388396010202 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 388396010203 Walker A/P-loop; other site 388396010204 ATP binding site [chemical binding]; other site 388396010205 Q-loop/lid; other site 388396010206 ABC transporter signature motif; other site 388396010207 Walker B; other site 388396010208 D-loop; other site 388396010209 H-loop/switch region; other site 388396010210 TOBE domain; Region: TOBE_2; cl01440 388396010211 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 388396010212 Glycogen_debranching_enzyme N-terminal domain. Glycogen debranching enzymes have both 4-alpha-glucanotransferase and amylo-1,6-glucosidase activities. As a transferase it transfers a segment of a 1,4-alpha-D-glucan to a new 4-position in an acceptor...; Region: Glycogen_debranching_enzyme_N_term; cd02856 388396010213 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 388396010214 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; cl00256 388396010215 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 388396010216 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 388396010217 active site 388396010218 phosphorylation site [posttranslational modification] 388396010219 intermolecular recognition site; other site 388396010220 dimerization interface [polypeptide binding]; other site 388396010221 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 388396010222 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 388396010223 glycogen synthase; Provisional; Region: glgA; PRK00654 388396010224 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 388396010225 ADP-binding pocket [chemical binding]; other site 388396010226 homodimer interface [polypeptide binding]; other site 388396010227 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 388396010228 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 388396010229 ligand binding site [chemical binding]; other site 388396010230 oligomer interface [polypeptide binding]; other site 388396010231 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 rate-...; Region: LbH_G1P_AT_C; cd04651 388396010232 dimer interface [polypeptide binding]; other site 388396010233 N-terminal domain interface [polypeptide binding]; other site 388396010234 sulfate 1 binding site; other site 388396010235 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 388396010236 putative active site [active] 388396010237 glycogen branching enzyme; Provisional; Region: PRK05402 388396010238 Glycogen branching enzyme N-terminus domain. Glycogen branching enzyme (AKA 1,4 alpha glucan branching enzyme) catalyzes the formation of alpha-1,6 branch points in either glycogen or starch by cleavage of the alpha-1,4 glucosidic linkage yielding a...; Region: Glycogen_branching_enzyme_N_term; cd02855 388396010239 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 388396010240 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 388396010241 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 388396010242 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 388396010243 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 388396010244 homodimer interface [polypeptide binding]; other site 388396010245 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 388396010246 active site pocket [active] 388396010247 transcriptional regulator MalT; Provisional; Region: PRK04841 388396010248 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...; Region: LuxR_C_like; cd06170 388396010249 DNA binding residues [nucleotide binding] 388396010250 dimerization interface [polypeptide binding]; other site 388396010251 Domain of unknown function (DUF368); Region: DUF368; cl00893 388396010252 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 388396010253 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 388396010254 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 388396010255 Cu(I) binding site [ion binding]; other site 388396010256 Protein of unknown function (DUF461); Region: DUF461; cl01071 388396010257 EamA-like transporter family; Region: EamA; cl01037 388396010258 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 388396010259 EamA-like transporter family; Region: EamA; cl01037 388396010260 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 388396010261 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 388396010262 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...; Region: Sigma70_r4; cl01055 388396010263 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 388396010264 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 388396010265 Glutathione S-transferase (GST) family, C-terminal alpha helical 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...; Region: GST_C_family; cd00299 388396010266 N-terminal domain interface [polypeptide binding]; other site 388396010267 dimer interface [polypeptide binding]; other site 388396010268 substrate binding pocket (H-site) [chemical binding]; other site 388396010269 Protein of unknown function (DUF465); Region: DUF465; cl01070 388396010270 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 388396010271 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 388396010272 FAD binding pocket [chemical binding]; other site 388396010273 FAD binding motif [chemical binding]; other site 388396010274 phosphate binding motif [ion binding]; other site 388396010275 NAD binding pocket [chemical binding]; other site 388396010276 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 388396010277 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 388396010278 Walker A/P-loop; other site 388396010279 ATP binding site [chemical binding]; other site 388396010280 Q-loop/lid; other site 388396010281 ABC transporter signature motif; other site 388396010282 Walker B; other site 388396010283 D-loop; other site 388396010284 H-loop/switch region; other site 388396010285 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 388396010286 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...; Region: TM_ABC_iron-siderophores_like; cd06550 388396010287 ABC-ATPase subunit interface; other site 388396010288 dimer interface [polypeptide binding]; other site 388396010289 putative PBP binding regions; other site 388396010290 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 388396010291 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...; Region: TM_ABC_iron-siderophores_like; cd06550 388396010292 ABC-ATPase subunit interface; other site 388396010293 dimer interface [polypeptide binding]; other site 388396010294 putative PBP binding regions; other site 388396010295 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 388396010296 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 388396010297 putative ligand binding residues [chemical binding]; other site 388396010298 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 388396010299 Sodium:solute symporter family; Region: SSF; cl00456 388396010300 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 388396010301 NAD(P) binding site [chemical binding]; other site 388396010302 catalytic residues [active] 388396010303 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 388396010304 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 388396010305 Proline dehydrogenase; Region: Pro_dh; cl03282 388396010306 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 388396010307 Glutamate binding site [chemical binding]; other site 388396010308 NAD binding site [chemical binding]; other site 388396010309 catalytic residues [active] 388396010310 Cupin domain; Region: Cupin_2; cl09118 388396010311 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 388396010312 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 388396010313 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 388396010314 PEGA domain; Region: PEGA; pfam08308 388396010315 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 388396010316 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 388396010317 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 388396010318 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 388396010319 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...; Region: LuxR_C_like; cd06170 388396010320 DNA binding residues [nucleotide binding] 388396010321 dimerization interface [polypeptide binding]; other site 388396010322 Uncharacterised protein family (UPF0014); Region: UPF0014; cl00424 388396010323 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 388396010324 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...; Region: Aldo_ket_red; cd06660 388396010325 active site 388396010326 catalytic tetrad [active] 388396010327 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 388396010328 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 388396010329 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 388396010330 Arginase family; Region: Arginase; cl00306 388396010331 arginine decarboxylase; Provisional; Region: PRK05354 388396010332 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 388396010333 dimer interface [polypeptide binding]; other site 388396010334 active site 388396010335 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 388396010336 catalytic residues [active] 388396010337 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 388396010338 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 388396010339 3-hydroxy-3-methylglutaryl Coenzyme A reductase, hydroxymethylglutaryl-CoA reductase (NADP); Region: HMG_CoA_R_NADP; TIGR00533 388396010340 tetramerization interface [polypeptide binding]; other site 388396010341 substrate binding pocket [chemical binding]; other site 388396010342 catalytic residues [active] 388396010343 inhibitor binding sites; inhibition site 388396010344 NADP(H) binding site [chemical binding]; other site 388396010345 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 388396010346 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 388396010347 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 388396010348 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396010349 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396010350 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 388396010351 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 388396010352 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 388396010353 active site 388396010354 ATP binding site [chemical binding]; other site 388396010355 substrate binding site [chemical binding]; other site 388396010356 activation loop (A-loop); other site 388396010357 Succinylarginine dihydrolase; Region: AstB; cl01511 388396010358 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 388396010359 putative S-transferase; Provisional; Region: PRK11752 388396010360 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...; Region: GST_N_Ure2p_like; cd03048 388396010361 C-terminal domain interface [polypeptide binding]; other site 388396010362 GSH binding site (G-site) [chemical binding]; other site 388396010363 dimer interface [polypeptide binding]; other site 388396010364 GST_C 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...; Region: GST_C_Ure2p_like; cd03178 388396010365 dimer interface [polypeptide binding]; other site 388396010366 N-terminal domain interface [polypeptide binding]; other site 388396010367 putative substrate binding pocket (H-site) [chemical binding]; other site 388396010368 EamA-like transporter family; Region: EamA; cl01037 388396010369 rarD protein; Region: rarD; TIGR00688 388396010370 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 388396010371 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 388396010372 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 388396010373 aspartate aminotransferase; Provisional; Region: PRK08361 388396010374 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 388396010375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396010376 homodimer interface [polypeptide binding]; other site 388396010377 catalytic residue [active] 388396010378 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 388396010379 A bacterial subgroup of the Peptidase M14-like domain of Nna-1 (Nervous system Nuclear protein induced by Axotomy), also known as ATP/GTP binding protein (AGTPBP-1) and cytosolic carboxypeptidase (CCP)-like proteins. The Peptidase M14 family of...; Region: M14_Nna1_like_1; cd06234 388396010380 putative active site [active] 388396010381 Zn-binding site [ion binding]; other site 388396010382 Survival protein SurE; Region: SurE; cl00448 388396010383 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 388396010384 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 388396010385 dimerization interface [polypeptide binding]; other site 388396010386 putative DNA binding site [nucleotide binding]; other site 388396010387 putative Zn2+ binding site [ion binding]; other site 388396010388 Membrane transport protein; Region: Mem_trans; cl09117 388396010389 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 388396010390 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396010391 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...; Region: trans_reg_C; cd00383 388396010392 DNA binding site [nucleotide binding] 388396010393 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 388396010394 GAF domain; Region: GAF; cl00853 388396010395 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...; Region: AAA; cd00009 388396010396 Walker A motif; other site 388396010397 ATP binding site [chemical binding]; other site 388396010398 Walker B motif; other site 388396010399 arginine finger; other site 388396010400 hybrid cluster protein; Provisional; Region: PRK05290 388396010401 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 alpha-; Region: HCP_like; cl14655 388396010402 ACS interaction site; other site 388396010403 CODH interaction site; other site 388396010404 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 388396010405 hybrid metal cluster; other site 388396010406 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 388396010407 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 388396010408 FAD binding pocket [chemical binding]; other site 388396010409 FAD binding motif [chemical binding]; other site 388396010410 phosphate binding motif [ion binding]; other site 388396010411 beta-alpha-beta structure motif; other site 388396010412 NAD binding pocket [chemical binding]; other site 388396010413 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 388396010414 catalytic loop [active] 388396010415 iron binding site [ion binding]; other site 388396010416 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 388396010417 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 388396010418 binding surface 388396010419 TPR motif; other site 388396010420 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 388396010421 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 388396010422 cellulose synthase regulator protein; Provisional; Region: PRK11114 388396010423 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 388396010424 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 388396010425 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 388396010426 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 388396010427 DXD motif; other site 388396010428 PilZ domain; Region: PilZ; cl01260 388396010429 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 388396010430 Protein of unknown function (DUF2819); Region: DUF2819; cl11882 388396010431 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 388396010432 Domain of unknown function (DUF386); Region: DUF386; cl01047 388396010433 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 388396010434 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 388396010435 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 388396010436 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 388396010437 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396010438 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396010439 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 388396010440 putative substrate binding pocket [chemical binding]; other site 388396010441 putative dimerization interface [polypeptide binding]; other site 388396010442 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 388396010443 Sulfatase; Region: Sulfatase; cl10460 388396010444 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 388396010445 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 388396010446 FeS/SAM binding site; other site 388396010447 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 388396010448 MoxR-like ATPases [General function prediction only]; Region: COG0714 388396010449 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...; Region: AAA; cd00009 388396010450 Walker A motif; other site 388396010451 ATP binding site [chemical binding]; other site 388396010452 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396010453 Walker B motif; other site 388396010454 arginine finger; other site 388396010455 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396010456 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 388396010457 Protein of unknown function DUF58; Region: DUF58; pfam01882 388396010458 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 para-...; Region: vWA_BatA_type; cd01467 388396010459 metal ion-dependent adhesion site (MIDAS); other site 388396010460 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 388396010461 metal ion-dependent adhesion site (MIDAS); other site 388396010462 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 388396010463 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 388396010464 Protein export membrane protein; Region: SecD_SecF; cl14618 388396010465 RecX family; Region: RecX; cl00936 388396010466 RecX family; Region: RecX; cl00936 388396010467 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 388396010468 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396010469 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396010470 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 388396010471 putative effector binding pocket; other site 388396010472 dimerization interface [polypeptide binding]; other site 388396010473 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 388396010474 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 388396010475 Walker A/P-loop; other site 388396010476 ATP binding site [chemical binding]; other site 388396010477 Q-loop/lid; other site 388396010478 ABC transporter signature motif; other site 388396010479 Walker B; other site 388396010480 D-loop; other site 388396010481 H-loop/switch region; other site 388396010482 Domain of unknown function DUF21; Region: DUF21; pfam01595 388396010483 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 388396010484 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 388396010485 Transporter associated domain; Region: CorC_HlyC; pfam03471 388396010486 maltose O-acetyltransferase; Provisional; Region: PRK10092 388396010487 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 388396010488 active site 388396010489 substrate binding site [chemical binding]; other site 388396010490 trimer interface [polypeptide binding]; other site 388396010491 CoA binding site [chemical binding]; other site 388396010492 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 388396010493 MatE; Region: MatE; pfam01554 388396010494 MatE; Region: MatE; pfam01554 388396010495 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 388396010496 catalytic motif [active] 388396010497 Zn binding site [ion binding]; other site 388396010498 FMN reductase; Validated; Region: fre; PRK08051 388396010499 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...; Region: flavin_oxioreductase; cd06189 388396010500 FAD binding pocket [chemical binding]; other site 388396010501 FAD binding motif [chemical binding]; other site 388396010502 phosphate binding motif [ion binding]; other site 388396010503 beta-alpha-beta structure motif; other site 388396010504 NAD binding pocket [chemical binding]; other site 388396010505 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 388396010506 Alkanal monooxygenase are flavin monoxygenases. Molecular oxygen is activated by reaction with reduced flavin mononucleotide (FMNH2) and reacts with an aldehyde to yield the carboxylic acid, oxidized flavin (FMN) and a blue-green light. Bacterial...; Region: Alkanal_monooxygenase; cd01096 388396010507 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 388396010508 dimer interface [polypeptide binding]; other site 388396010509 non-prolyl cis peptide bond; other site 388396010510 active site 388396010511 Alkanal monooxygenase are flavin monoxygenases. Molecular oxygen is activated by reaction with reduced flavin mononucleotide (FMNH2) and reacts with an aldehyde to yield the carboxylic acid, oxidized flavin (FMN) and a blue-green light. Bacterial...; Region: Alkanal_monooxygenase; cd01096 388396010512 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 388396010513 dimer interface [polypeptide binding]; other site 388396010514 non-prolyl cis peptide bond; other site 388396010515 active site 388396010516 acyl transferase; Provisional; Region: luxD; PRK13604 388396010517 Acyl transferase; Region: Acyl_transf_2; pfam02273 388396010518 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 388396010519 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 388396010520 putative catalytic cysteine [active] 388396010521 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396010522 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 388396010523 Autoinducer binding domain; Region: Autoind_bind; pfam03472 388396010524 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...; Region: LuxR_C_like; cd06170 388396010525 DNA binding residues [nucleotide binding] 388396010526 dimerization interface [polypeptide binding]; other site 388396010527 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 388396010528 Mechanosensitive ion channel; Region: MS_channel; pfam00924 388396010529 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 388396010530 Nucleoside recognition; Region: Gate; cl00486 388396010531 Nucleoside recognition; Region: Gate; cl00486 388396010532 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 388396010533 hypothetical protein; Provisional; Region: PRK07338 388396010534 metal binding site [ion binding]; metal-binding site 388396010535 dimer interface [polypeptide binding]; other site 388396010536 transcriptional regulator HilD; Provisional; Region: PRK15185 388396010537 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 388396010538 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 388396010539 substrate binding site [chemical binding]; other site 388396010540 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 388396010541 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396010542 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396010543 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 388396010544 dimerization interface [polypeptide binding]; other site 388396010545 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases...; Region: sialate_O-acetylesterase_like2; cd01828 388396010546 active site 388396010547 catalytic triad [active] 388396010548 oxyanion hole [active] 388396010549 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 388396010550 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 388396010551 motif II; other site 388396010552 LysE type translocator; Region: LysE; cl00565 388396010553 Surface antigen; Region: Surface_Ag_2; cl01155 388396010554 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 388396010555 P-loop; other site 388396010556 active site 388396010557 phosphorylation site [posttranslational modification] 388396010558 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 388396010559 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA...; Region: PTS_IIB_fructose; cd05569 388396010560 P-loop; other site 388396010561 active site 388396010562 phosphorylation site [posttranslational modification] 388396010563 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 388396010564 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 388396010565 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 388396010566 putative substrate binding site [chemical binding]; other site 388396010567 putative ATP binding site [chemical binding]; other site 388396010568 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 388396010569 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 388396010570 active site 388396010571 phosphorylation site [posttranslational modification] 388396010572 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 388396010573 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 388396010574 dimerization domain swap beta strand [polypeptide binding]; other site 388396010575 regulatory protein interface [polypeptide binding]; other site 388396010576 active site 388396010577 regulatory phosphorylation site [posttranslational modification]; other site 388396010578 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 388396010579 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 388396010580 DNA binding site [nucleotide binding] 388396010581 domain linker motif; other site 388396010582 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 388396010583 dimerization interface [polypeptide binding]; other site 388396010584 ligand binding site [chemical binding]; other site 388396010585 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 388396010586 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 388396010587 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 388396010588 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 388396010589 Protein of unknown function (DUF796); Region: DUF796; cl01226 388396010590 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; cl12011 388396010591 sugar phosphate phosphatase; Provisional; Region: PRK10513 388396010592 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 388396010593 active site 388396010594 motif I; other site 388396010595 motif II; other site 388396010596 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; cl11391 388396010597 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 388396010598 Major Facilitator Superfamily; Region: MFS_1; pfam07690 388396010599 putative substrate translocation pore; other site 388396010600 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 388396010601 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 388396010602 putative active site [active] 388396010603 catalytic site [active] 388396010604 putative metal binding site [ion binding]; other site 388396010605 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396010606 metal binding site [ion binding]; metal-binding site 388396010607 active site 388396010608 I-site; other site 388396010609 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 388396010610 hypothetical protein; Provisional; Region: PRK10977 388396010611 Glycine radical; Region: Gly_radical; cl12026 388396010612 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 388396010613 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; cl14056 388396010614 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 388396010615 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 388396010616 DNA binding site [nucleotide binding] 388396010617 domain linker motif; other site 388396010618 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 388396010619 putative ligand binding site [chemical binding]; other site 388396010620 putative dimerization interface [polypeptide binding]; other site 388396010621 Dehydratase family; Region: ILVD_EDD; cl00340 388396010622 6-phosphogluconate dehydratase; Region: edd; TIGR01196 388396010623 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 388396010624 ATP-binding site [chemical binding]; other site 388396010625 Gluconate-6-phosphate binding site [chemical binding]; other site 388396010626 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 388396010627 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 388396010628 active site 388396010629 intersubunit interface [polypeptide binding]; other site 388396010630 catalytic residue [active] 388396010631 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 388396010632 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 388396010633 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396010634 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396010635 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 388396010636 substrate binding pocket [chemical binding]; other site 388396010637 dimerization interface [polypeptide binding]; other site 388396010638 Predicted membrane protein [Function unknown]; Region: COG2119 388396010639 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 388396010640 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 388396010641 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH...; Region: NfsA_FRP; cd02146 388396010642 dimer interface [polypeptide binding]; other site 388396010643 FMN binding site [chemical binding]; other site 388396010644 NADPH bind site [chemical binding]; other site 388396010645 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 388396010646 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 388396010647 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 388396010648 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 388396010649 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 388396010650 Nucleoside recognition; Region: Gate; cl00486 388396010651 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 388396010652 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 388396010653 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 388396010654 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...; Region: metallo-dependent_hydrolases; cl00281 388396010655 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 388396010656 active site 388396010657 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 388396010658 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 388396010659 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 388396010660 Walker A/P-loop; other site 388396010661 ATP binding site [chemical binding]; other site 388396010662 Q-loop/lid; other site 388396010663 ABC transporter signature motif; other site 388396010664 Walker B; other site 388396010665 D-loop; other site 388396010666 H-loop/switch region; other site 388396010667 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 388396010668 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...; Region: TM_ABC_iron-siderophores_like; cd06550 388396010669 ABC-ATPase subunit interface; other site 388396010670 dimer interface [polypeptide binding]; other site 388396010671 putative PBP binding regions; other site 388396010672 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 388396010673 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface...; Region: TroA-like; cl00262 388396010674 intersubunit interface [polypeptide binding]; other site 388396010675 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 388396010676 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396010677 metal binding site [ion binding]; metal-binding site 388396010678 active site 388396010679 I-site; other site 388396010680 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 388396010681 Major Facilitator Superfamily; Region: MFS_1; pfam07690 388396010682 putative substrate translocation pore; other site 388396010683 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 388396010684 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396010685 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 388396010686 dimerization interface [polypeptide binding]; other site 388396010687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 388396010688 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 388396010689 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 388396010690 ornithine decarboxylase; Provisional; Region: PRK13578 388396010691 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 388396010692 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and...; Region: Orn_deC_like; cd00615 388396010693 homodimer interface [polypeptide binding]; other site 388396010694 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396010695 catalytic residue [active] 388396010696 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 388396010697 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 388396010698 conserved cys residue [active] 388396010699 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 388396010700 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 388396010701 active site 388396010702 intersubunit interface [polypeptide binding]; other site 388396010703 catalytic residue [active] 388396010704 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 388396010705 substrate binding site [chemical binding]; other site 388396010706 ATP binding site [chemical binding]; other site 388396010707 hypothetical protein; Provisional; Region: PRK08185 388396010708 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...; Region: TBP_aldolase_IIB; cd00947 388396010709 intersubunit interface [polypeptide binding]; other site 388396010710 active site 388396010711 zinc binding site [ion binding]; other site 388396010712 Na+ binding site [ion binding]; other site 388396010713 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 388396010714 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 388396010715 molybdopterin cofactor binding site [chemical binding]; other site 388396010716 substrate binding site [chemical binding]; other site 388396010717 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 388396010718 molybdopterin cofactor binding site; other site 388396010719 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 388396010720 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 388396010721 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 388396010722 Sulfatase; Region: Sulfatase; cl10460 388396010723 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 388396010724 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 388396010725 FeS/SAM binding site; other site 388396010726 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 388396010727 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues...; Region: GAG_Lyase; cd01083 388396010728 substrate binding site [chemical binding]; other site 388396010729 catalytic residues [active] 388396010730 Iron permease FTR1 family; Region: FTR1; cl00475 388396010731 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 388396010732 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK12481 388396010733 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 388396010734 NADP binding site [chemical binding]; other site 388396010735 homodimer interface [polypeptide binding]; other site 388396010736 active site 388396010737 KduI/IolB family; Region: KduI; cl01508 388396010738 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 388396010739 isoaspartyl dipeptidase IadA; Region: isoAsp_dipep; TIGR01975 388396010740 active site 388396010741 dimer interface [polypeptide binding]; other site 388396010742 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_man; cd00006 388396010743 active pocket/dimerization site; other site 388396010744 active site 388396010745 phosphorylation site [posttranslational modification] 388396010746 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 388396010747 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 388396010748 Mannose/sorbose 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 is one of four...; Region: PTS_IIB_man; cd00001 388396010749 active site 388396010750 phosphorylation site [posttranslational modification] 388396010751 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 388396010752 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 388396010753 dimer interface [polypeptide binding]; other site 388396010754 active site 388396010755 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases (...; Region: SIS_AgaS_like; cd05010 388396010756 putative active site [active] 388396010757 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 388396010758 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 388396010759 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396010760 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 388396010761 Sulfatase; Region: Sulfatase; cl10460 388396010762 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 388396010763 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 388396010764 Putative carbohydrate binding domain; Region: CHB_HEX; pfam03173 388396010765 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 388396010766 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 388396010767 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)...; Region: GH20_Sm-chitobiase-like; cd06569 388396010768 active site 388396010769 Chitobiase C-terminus domain. Chitobiase (AKA N-acetylglucosaminidase) digests the beta, 1-4 glycosidic bonds of the N-acetylglucosamine (NAG) oligomers found in chitin, an important structural element of fungal cell wall and arthropod exoskeletons; Region: Chitobiase_C_term; cd02847 388396010770 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 388396010771 Response regulator receiver domain; Region: Response_reg; pfam00072 388396010772 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 388396010773 active site 388396010774 phosphorylation site [posttranslational modification] 388396010775 intermolecular recognition site; other site 388396010776 dimerization interface [polypeptide binding]; other site 388396010777 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396010778 metal binding site [ion binding]; metal-binding site 388396010779 active site 388396010780 I-site; other site 388396010781 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396010782 I-site; other site 388396010783 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 388396010784 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 388396010785 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 388396010786 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 388396010787 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...; Region: Sigma70_r4; cl01055 388396010788 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 trans-...; Region: HisKA; cd00082 388396010789 dimer interface [polypeptide binding]; other site 388396010790 phosphorylation site [posttranslational modification] 388396010791 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 388396010792 ATP binding site [chemical binding]; other site 388396010793 Mg2+ binding site [ion binding]; other site 388396010794 G-X-G motif; other site 388396010795 Response regulator receiver domain; Region: Response_reg; pfam00072 388396010796 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 388396010797 active site 388396010798 phosphorylation site [posttranslational modification] 388396010799 intermolecular recognition site; other site 388396010800 dimerization interface [polypeptide binding]; other site 388396010801 Response regulator receiver domain; Region: Response_reg; pfam00072 388396010802 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 388396010803 active site 388396010804 phosphorylation site [posttranslational modification] 388396010805 intermolecular recognition site; other site 388396010806 dimerization interface [polypeptide binding]; other site 388396010807 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 388396010808 anti sigma factor interaction site; other site 388396010809 regulatory phosphorylation site [posttranslational modification]; other site 388396010810 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 388396010811 ligand binding site [chemical binding]; other site 388396010812 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 388396010813 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 388396010814 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 388396010815 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 388396010816 SLBB domain; Region: SLBB; pfam10531 388396010817 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 388396010818 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 388396010819 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 388396010820 Response regulator receiver domain; Region: Response_reg; pfam00072 388396010821 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 388396010822 active site 388396010823 phosphorylation site [posttranslational modification] 388396010824 intermolecular recognition site; other site 388396010825 dimerization interface [polypeptide binding]; other site 388396010826 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 388396010827 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 388396010828 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 388396010829 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396010830 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 trans-...; Region: HisKA; cd00082 388396010831 dimer interface [polypeptide binding]; other site 388396010832 phosphorylation site [posttranslational modification] 388396010833 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 388396010834 ATP binding site [chemical binding]; other site 388396010835 Mg2+ binding site [ion binding]; other site 388396010836 G-X-G motif; other site 388396010837 Response regulator receiver domain; Region: Response_reg; pfam00072 388396010838 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 388396010839 active site 388396010840 phosphorylation site [posttranslational modification] 388396010841 intermolecular recognition site; other site 388396010842 dimerization interface [polypeptide binding]; other site 388396010843 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 388396010844 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 388396010845 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 388396010846 active site 388396010847 phosphorylation site [posttranslational modification] 388396010848 intermolecular recognition site; other site 388396010849 dimerization interface [polypeptide binding]; other site 388396010850 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...; Region: AAA; cd00009 388396010851 Walker A motif; other site 388396010852 ATP binding site [chemical binding]; other site 388396010853 Walker B motif; other site 388396010854 arginine finger; other site 388396010855 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 388396010856 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 388396010857 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 388396010858 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 388396010859 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 388396010860 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 388396010861 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 388396010862 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 388396010863 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 388396010864 O-Antigen ligase; Region: Wzy_C; cl04850 388396010865 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 388396010866 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 6-...; Region: LbH_MAT_like; cd04647 388396010867 trimer interface [polypeptide binding]; other site 388396010868 active site 388396010869 substrate binding site [chemical binding]; other site 388396010870 CoA binding site [chemical binding]; other site 388396010871 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 388396010872 putative homodimer interface [polypeptide binding]; other site 388396010873 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 388396010874 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 388396010875 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 388396010876 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 388396010877 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 388396010878 DXD motif; other site 388396010879 Bacterial sugar transferase; Region: Bac_transf; cl00939 388396010880 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 388396010881 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 388396010882 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 388396010883 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide...; Region: NrdH; cd02976 388396010884 catalytic residues [active] 388396010885 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 388396010886 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 388396010887 FtsX-like permease family; Region: FtsX; pfam02687 388396010888 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 388396010889 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 388396010890 Walker A/P-loop; other site 388396010891 ATP binding site [chemical binding]; other site 388396010892 Q-loop/lid; other site 388396010893 ABC transporter signature motif; other site 388396010894 Walker B; other site 388396010895 D-loop; other site 388396010896 H-loop/switch region; other site 388396010897 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 388396010898 active site 388396010899 catalytic triad [active] 388396010900 oxyanion hole [active] 388396010901 switch loop; other site 388396010902 Protein of unknown function, DUF; Region: DUF413; cl10479 388396010903 transcriptional regulator HdfR; Provisional; Region: PRK03601 388396010904 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396010905 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 388396010906 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 388396010907 MgtE intracellular N domain; Region: MgtE_N; cl15244 388396010908 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 388396010909 Divalent cation transporter; Region: MgtE; cl00786 388396010910 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396010911 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396010912 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 388396010913 putative effector binding pocket; other site 388396010914 dimerization interface [polypeptide binding]; other site 388396010915 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 388396010916 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 388396010917 FMN binding site [chemical binding]; other site 388396010918 active site 388396010919 substrate binding site [chemical binding]; other site 388396010920 catalytic residue [active] 388396010921 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 388396010922 DNA binding residues [nucleotide binding] 388396010923 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396010924 EamA-like transporter family; Region: EamA; cl01037 388396010925 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 388396010926 EamA-like transporter family; Region: EamA; cl01037 388396010927 3D domain; Region: 3D; cl01439 388396010928 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 388396010929 Uncharacterized conserved protein [Function unknown]; Region: COG5361 388396010930 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 388396010931 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 388396010932 Uncharacterized conserved protein [Function unknown]; Region: COG5361 388396010933 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 388396010934 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 388396010935 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396010936 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 388396010937 dimerization interface [polypeptide binding]; other site 388396010938 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 388396010939 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396010940 Membrane transport protein; Region: Mem_trans; cl09117 388396010941 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 388396010942 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 388396010943 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396010944 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 388396010945 dimerization interface [polypeptide binding]; other site 388396010946 substrate binding pocket [chemical binding]; other site 388396010947 Cupin domain; Region: Cupin_2; cl09118 388396010948 Cupin domain; Region: Cupin_2; cl09118 388396010949 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 388396010950 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396010951 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 388396010952 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 388396010953 active site pocket [active] 388396010954 oxyanion hole [active] 388396010955 catalytic triad [active] 388396010956 active site nucleophile [active] 388396010957 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 388396010958 ATP binding site [chemical binding]; other site 388396010959 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 388396010960 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 388396010961 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 388396010962 Domain of unknown function DUF20; Region: UPF0118; cl00465 388396010963 aromatic amino acid exporter; Provisional; Region: PRK11689 388396010964 Cache domain; Region: Cache_1; pfam02743 388396010965 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 388396010966 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 connected by an extended linker. The...; Region: HAMP; cd06225 388396010967 dimerization interface [polypeptide binding]; other site 388396010968 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 388396010969 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396010970 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396010971 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 388396010972 dimerization interface [polypeptide binding]; other site 388396010973 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 388396010974 Sulfatase; Region: Sulfatase; cl10460 388396010975 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 388396010976 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396010977 dimer interface [polypeptide binding]; other site 388396010978 putative PBP binding loops; other site 388396010979 ABC-ATPase subunit interface; other site 388396010980 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 388396010981 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 388396010982 dimer interface [polypeptide binding]; other site 388396010983 conserved gate region; other site 388396010984 putative PBP binding loops; other site 388396010985 ABC-ATPase subunit interface; other site 388396010986 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 388396010987 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 388396010988 Walker A/P-loop; other site 388396010989 ATP binding site [chemical binding]; other site 388396010990 Q-loop/lid; other site 388396010991 ABC transporter signature motif; other site 388396010992 Walker B; other site 388396010993 D-loop; other site 388396010994 H-loop/switch region; other site 388396010995 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; cl11391 388396010996 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 protein...; Region: CSP_CDS; cd04458 388396010997 DNA-binding site [nucleotide binding]; DNA binding site 388396010998 RNA-binding motif; other site 388396010999 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 388396011000 Surface antigen; Region: Surface_Ag_2; cl01155 388396011001 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 388396011002 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 388396011003 ligand binding site [chemical binding]; other site 388396011004 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 388396011005 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 388396011006 DNA binding site [nucleotide binding] 388396011007 active site 388396011008 Int/Topo IB signature motif; other site 388396011009 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 388396011010 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 388396011011 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 388396011012 putative substrate translocation pore; other site 388396011013 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 388396011014 mechanosensitive channel MscS; Provisional; Region: PRK10334 388396011015 Mechanosensitive ion channel; Region: MS_channel; pfam00924 388396011016 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 388396011017 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396011018 LysR family transcriptional regulator; Provisional; Region: PRK14997 388396011019 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 388396011020 putative effector binding pocket; other site 388396011021 dimerization interface [polypeptide binding]; other site 388396011022 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 388396011023 TPR motif; other site 388396011024 binding surface 388396011025 LysE type translocator; Region: LysE; cl00565 388396011026 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 388396011027 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396011028 Cation efflux family; Region: Cation_efflux; cl00316 388396011029 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396011030 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396011031 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 388396011032 dimerization interface [polypeptide binding]; other site 388396011033 LysE type translocator; Region: LysE; cl00565 388396011034 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 388396011035 Cytochrome C'; Region: Cytochrom_C_2; cl01610 388396011036 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 388396011037 Transcriptional regulators [Transcription]; Region: MarR; COG1846 388396011038 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396011039 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 388396011040 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 388396011041 Coenzyme A binding pocket [chemical binding]; other site 388396011042 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 388396011043 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 388396011044 inhibitor-cofactor binding pocket; inhibition site 388396011045 pyridoxal 5'-phosphate binding site [chemical binding]; other site 388396011046 catalytic residue [active] 388396011047 Cupin domain; Region: Cupin_2; cl09118 388396011048 aspartate kinase; Validated; Region: PRK09181 388396011049 AAK_AK-Ectoine: Amino Acid Kinase Superfamily (AAK), AK-Ectoine; this CD includes the N-terminal catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium...; Region: AAK_AK-Ectoine; cd04248 388396011050 putative catalytic residues [active] 388396011051 putative nucleotide binding site [chemical binding]; other site 388396011052 putative aspartate binding site [chemical binding]; other site 388396011053 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 388396011054 allosteric regulatory residue; other site 388396011055 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_2; cd04915 388396011056 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396011057 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 388396011058 dimerization interface [polypeptide binding]; other site 388396011059 Predicted membrane protein [Function unknown]; Region: COG4125 388396011060 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 388396011061 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 388396011062 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 388396011063 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 388396011064 ATP binding site [chemical binding]; other site 388396011065 dimerization interface [polypeptide binding]; other site 388396011066 Metal binding site [ion binding]; metal-binding site 388396011067 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 388396011068 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 388396011069 ATP binding site [chemical binding]; other site 388396011070 dimerization interface [polypeptide binding]; other site 388396011071 Metal binding site [ion binding]; metal-binding site 388396011072 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 388396011073 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 388396011074 carbamate kinase; Reviewed; Region: PRK09411 388396011075 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 388396011076 putative substrate binding site [chemical binding]; other site 388396011077 nucleotide binding site [chemical binding]; other site 388396011078 nucleotide binding site [chemical binding]; other site 388396011079 homodimer interface [polypeptide binding]; other site 388396011080 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; cl11391 388396011081 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 388396011082 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; cl11391 388396011083 Transcriptional regulator [Transcription]; Region: LysR; COG0583 388396011084 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396011085 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 388396011086 putative effector binding pocket; other site 388396011087 dimerization interface [polypeptide binding]; other site 388396011088 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 388396011089 Protein export membrane protein; Region: SecD_SecF; cl14618 388396011090 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 388396011091 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; cl12011 388396011092 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 388396011093 Protein of unknown function (DUF2810); Region: DUF2810; cl08159 388396011094 RF-1 domain; Region: RF-1; cl02875 388396011095 DEAD-like helicases superfamily; Region: DEXDc; smart00487 388396011096 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 388396011097 ATP binding site [chemical binding]; other site 388396011098 putative Mg++ binding site [ion binding]; other site 388396011099 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 388396011100 nucleotide binding region [chemical binding]; other site 388396011101 ATP-binding site [chemical binding]; other site 388396011102 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 388396011103 Protein of unknown function (DUF342); Region: DUF342; pfam03961 388396011104 putative transporter; Provisional; Region: PRK11043 388396011105 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 388396011106 putative substrate translocation pore; other site 388396011107 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 388396011108 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 388396011109 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 388396011110 dimerization interface [polypeptide binding]; other site 388396011111 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 388396011112 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 388396011113 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 388396011114 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell...; Region: CA; cd00031 388396011115 Ca2+ binding site [ion binding]; other site 388396011116 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell...; Region: CA; cd00031 388396011117 Ca2+ binding site [ion binding]; other site 388396011118 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell...; Region: CA; cd00031 388396011119 Ca2+ binding site [ion binding]; other site 388396011120 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell...; Region: CA; cd00031 388396011121 Ca2+ binding site [ion binding]; other site 388396011122 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell...; Region: CA; cd00031 388396011123 Ca2+ binding site [ion binding]; other site 388396011124 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell...; Region: CA; cd00031 388396011125 Ca2+ binding site [ion binding]; other site 388396011126 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell...; Region: CA; cd00031 388396011127 Ca2+ binding site [ion binding]; other site 388396011128 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell...; Region: CA; cd00031 388396011129 Ca2+ binding site [ion binding]; other site 388396011130 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 388396011131 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; cl12108 388396011132 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 388396011133 Outer membrane efflux protein; Region: OEP; pfam02321 388396011134 Outer membrane efflux protein; Region: OEP; pfam02321 388396011135 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 388396011136 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 388396011137 ligand binding site [chemical binding]; other site 388396011138 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 388396011139 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 388396011140 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 388396011141 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 388396011142 Walker A/P-loop; other site 388396011143 ATP binding site [chemical binding]; other site 388396011144 Q-loop/lid; other site 388396011145 ABC transporter signature motif; other site 388396011146 Walker B; other site 388396011147 D-loop; other site 388396011148 H-loop/switch region; other site 388396011149 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 connected by an extended linker. The...; Region: HAMP; cl01054 388396011150 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 388396011151 active site 388396011152 I-site; other site 388396011153 metal binding site [ion binding]; metal-binding site 388396011154 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 388396011155 Bacterial protein of unknown function (DUF920); Region: DUF920; cl01479 388396011156 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 388396011157 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 388396011158 Putative ATPase (DUF699); Region: DUF699; pfam05127 388396011159 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 388396011160 plasmid-partitioning protein; Provisional; Region: PRK13698 388396011161 ParB-like nuclease domain; Region: ParBc; cl02129 388396011162 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 388396011163 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...; Region: ParA; cd02042 388396011164 P-loop; other site 388396011165 Magnesium ion binding site [ion binding]; other site 388396011166 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...; Region: ParA; cd02042 388396011167 Magnesium ion binding site [ion binding]; other site