-- dump date 20140619_164720 -- class Genbank::misc_feature -- table misc_feature_note -- id note 323848000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 323848000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 323848000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848000004 Walker A motif; other site 323848000005 ATP binding site [chemical binding]; other site 323848000006 Walker B motif; other site 323848000007 arginine finger; other site 323848000008 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 323848000009 DnaA box-binding interface [nucleotide binding]; other site 323848000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 323848000011 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 323848000012 putative DNA binding surface [nucleotide binding]; other site 323848000013 dimer interface [polypeptide binding]; other site 323848000014 beta-clamp/clamp loader binding surface; other site 323848000015 beta-clamp/translesion DNA polymerase binding surface; other site 323848000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 323848000017 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 323848000018 Mg2+ binding site [ion binding]; other site 323848000019 G-X-G motif; other site 323848000020 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 323848000021 anchoring element; other site 323848000022 dimer interface [polypeptide binding]; other site 323848000023 ATP binding site [chemical binding]; other site 323848000024 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 323848000025 active site 323848000026 putative metal-binding site [ion binding]; other site 323848000027 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 323848000028 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 323848000029 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 323848000030 dimer interface [polypeptide binding]; other site 323848000031 active site 323848000032 glycine-pyridoxal phosphate binding site [chemical binding]; other site 323848000033 folate binding site [chemical binding]; other site 323848000034 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 323848000035 ATP cone domain; Region: ATP-cone; pfam03477 323848000036 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 323848000037 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 323848000038 catalytic motif [active] 323848000039 Zn binding site [ion binding]; other site 323848000040 RibD C-terminal domain; Region: RibD_C; cl17279 323848000041 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 323848000042 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 323848000043 active site 323848000044 phosphorylation site [posttranslational modification] 323848000045 intermolecular recognition site; other site 323848000046 dimerization interface [polypeptide binding]; other site 323848000047 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323848000048 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323848000049 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 323848000050 ATP binding site [chemical binding]; other site 323848000051 G-X-G motif; other site 323848000052 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 323848000053 Lumazine binding domain; Region: Lum_binding; pfam00677 323848000054 Lumazine binding domain; Region: Lum_binding; pfam00677 323848000055 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 323848000056 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 323848000057 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 323848000058 dimerization interface [polypeptide binding]; other site 323848000059 active site 323848000060 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 323848000061 homopentamer interface [polypeptide binding]; other site 323848000062 active site 323848000063 transcription antitermination factor NusB; Region: nusB; TIGR01951 323848000064 putative RNA binding site [nucleotide binding]; other site 323848000065 thiamine monophosphate kinase; Provisional; Region: PRK05731 323848000066 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 323848000067 ATP binding site [chemical binding]; other site 323848000068 dimerization interface [polypeptide binding]; other site 323848000069 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 323848000070 tetramer interfaces [polypeptide binding]; other site 323848000071 binuclear metal-binding site [ion binding]; other site 323848000072 Competence-damaged protein; Region: CinA; cl00666 323848000073 hypothetical protein; Provisional; Region: PRK05208 323848000074 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 323848000075 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 323848000076 binding surface 323848000077 TPR motif; other site 323848000078 TPR repeat; Region: TPR_11; pfam13414 323848000079 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 323848000080 binding surface 323848000081 TPR motif; other site 323848000082 TPR repeat; Region: TPR_11; pfam13414 323848000083 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 323848000084 binding surface 323848000085 TPR motif; other site 323848000086 recombinase A; Provisional; Region: recA; PRK09354 323848000087 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 323848000088 hexamer interface [polypeptide binding]; other site 323848000089 Walker A motif; other site 323848000090 ATP binding site [chemical binding]; other site 323848000091 Walker B motif; other site 323848000092 RecX family; Region: RecX; cl00936 323848000093 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 323848000094 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 323848000095 motif 1; other site 323848000096 active site 323848000097 motif 2; other site 323848000098 motif 3; other site 323848000099 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 323848000100 DHHA1 domain; Region: DHHA1; pfam02272 323848000101 thioredoxin reductase; Provisional; Region: PRK10262 323848000102 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 323848000103 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323848000104 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 323848000105 Smr domain; Region: Smr; pfam01713 323848000106 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 323848000107 Major Facilitator Superfamily; Region: MFS_1; pfam07690 323848000108 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 323848000109 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 323848000110 Protein of unknown function (DUF445); Region: DUF445; pfam04286 323848000111 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 323848000112 S-adenosylmethionine synthetase; Provisional; Region: PRK12459 323848000113 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 323848000114 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 323848000115 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 323848000116 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 323848000117 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 323848000118 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323848000119 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 323848000120 Soluble P-type ATPase [General function prediction only]; Region: COG4087 323848000121 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 323848000122 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 323848000123 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 323848000124 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 323848000125 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 323848000126 active site 323848000127 DNA binding site [nucleotide binding] 323848000128 Int/Topo IB signature motif; other site 323848000129 catalytic residues [active] 323848000130 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 323848000131 dimer interface [polypeptide binding]; other site 323848000132 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323848000133 ligand binding site [chemical binding]; other site 323848000134 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323848000135 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323848000136 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323848000137 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 323848000138 HlyD family secretion protein; Region: HlyD_3; pfam13437 323848000139 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323848000140 PEP-CTERM motif; Region: VPEP; pfam07589 323848000141 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 323848000142 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 323848000143 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 323848000144 substrate binding pocket [chemical binding]; other site 323848000145 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 323848000146 B12 binding site [chemical binding]; other site 323848000147 cobalt ligand [ion binding]; other site 323848000148 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 323848000149 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848000150 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848000151 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848000152 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 323848000153 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 323848000154 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323848000155 Zn2+ binding site [ion binding]; other site 323848000156 Mg2+ binding site [ion binding]; other site 323848000157 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 323848000158 synthetase active site [active] 323848000159 NTP binding site [chemical binding]; other site 323848000160 metal binding site [ion binding]; metal-binding site 323848000161 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 323848000162 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 323848000163 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 323848000164 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 323848000165 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 323848000166 catalytic site [active] 323848000167 G-X2-G-X-G-K; other site 323848000168 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 323848000169 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 323848000170 catalytic residues [active] 323848000171 Transposase; Region: HTH_Tnp_1; cl17663 323848000172 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 323848000173 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 323848000174 HTH-like domain; Region: HTH_21; pfam13276 323848000175 Integrase core domain; Region: rve; pfam00665 323848000176 Integrase core domain; Region: rve_3; pfam13683 323848000177 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 323848000178 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 323848000179 tandem repeat interface [polypeptide binding]; other site 323848000180 oligomer interface [polypeptide binding]; other site 323848000181 active site residues [active] 323848000182 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 323848000183 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 323848000184 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 323848000185 active site 323848000186 Int/Topo IB signature motif; other site 323848000187 hypothetical protein; Provisional; Region: PRK11820 323848000188 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 323848000189 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 323848000190 ribonuclease PH; Reviewed; Region: rph; PRK00173 323848000191 Ribonuclease PH; Region: RNase_PH_bact; cd11362 323848000192 hexamer interface [polypeptide binding]; other site 323848000193 active site 323848000194 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 323848000195 active site 323848000196 dimerization interface [polypeptide binding]; other site 323848000197 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 323848000198 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 323848000199 FeS/SAM binding site; other site 323848000200 HemN C-terminal domain; Region: HemN_C; pfam06969 323848000201 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 323848000202 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 323848000203 ThiS interaction site; other site 323848000204 putative active site [active] 323848000205 tetramer interface [polypeptide binding]; other site 323848000206 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 323848000207 thiS-thiF/thiG interaction site; other site 323848000208 HPP family; Region: HPP; pfam04982 323848000209 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 323848000210 dimerization interface [polypeptide binding]; other site 323848000211 Ion transport protein; Region: Ion_trans; pfam00520 323848000212 Ion channel; Region: Ion_trans_2; pfam07885 323848000213 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 323848000214 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 323848000215 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 323848000216 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 323848000217 minor groove reading motif; other site 323848000218 helix-hairpin-helix signature motif; other site 323848000219 substrate binding pocket [chemical binding]; other site 323848000220 active site 323848000221 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 323848000222 DNA binding and oxoG recognition site [nucleotide binding] 323848000223 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 323848000224 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 323848000225 aromatic acid decarboxylase; Validated; Region: PRK05920 323848000226 Flavoprotein; Region: Flavoprotein; pfam02441 323848000227 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 323848000228 HPr kinase/phosphorylase; Provisional; Region: PRK05428 323848000229 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 323848000230 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 323848000231 Hpr binding site; other site 323848000232 active site 323848000233 homohexamer subunit interaction site [polypeptide binding]; other site 323848000234 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 323848000235 30S subunit binding site; other site 323848000236 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 323848000237 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 323848000238 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 323848000239 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 323848000240 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 323848000241 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 323848000242 Walker A/P-loop; other site 323848000243 ATP binding site [chemical binding]; other site 323848000244 Q-loop/lid; other site 323848000245 ABC transporter signature motif; other site 323848000246 Walker B; other site 323848000247 D-loop; other site 323848000248 H-loop/switch region; other site 323848000249 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 323848000250 OstA-like protein; Region: OstA; pfam03968 323848000251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 323848000252 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 323848000253 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 323848000254 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 323848000255 active site 323848000256 motif I; other site 323848000257 motif II; other site 323848000258 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 323848000259 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 323848000260 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 323848000261 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 323848000262 cobalamin binding residues [chemical binding]; other site 323848000263 putative BtuC binding residues; other site 323848000264 dimer interface [polypeptide binding]; other site 323848000265 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 323848000266 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 323848000267 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 323848000268 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 323848000269 BON domain; Region: BON; pfam04972 323848000270 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 323848000271 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 323848000272 active site 323848000273 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 323848000274 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 323848000275 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 323848000276 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 323848000277 acyl-activating enzyme (AAE) consensus motif; other site 323848000278 acyl-activating enzyme (AAE) consensus motif; other site 323848000279 putative AMP binding site [chemical binding]; other site 323848000280 putative active site [active] 323848000281 putative CoA binding site [chemical binding]; other site 323848000282 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 323848000283 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 323848000284 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 323848000285 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 323848000286 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 323848000287 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 323848000288 substrate binding site [chemical binding]; other site 323848000289 oxyanion hole (OAH) forming residues; other site 323848000290 trimer interface [polypeptide binding]; other site 323848000291 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 323848000292 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 323848000293 dimer interface [polypeptide binding]; other site 323848000294 active site 323848000295 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 323848000296 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 323848000297 short chain dehydrogenase; Validated; Region: PRK06182 323848000298 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 323848000299 NADP binding site [chemical binding]; other site 323848000300 active site 323848000301 steroid binding site; other site 323848000302 spermidine synthase; Provisional; Region: PRK04457 323848000303 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323848000304 Sel1-like repeats; Region: SEL1; smart00671 323848000305 Sel1-like repeats; Region: SEL1; smart00671 323848000306 Sel1-like repeats; Region: SEL1; smart00671 323848000307 Sel1-like repeats; Region: SEL1; smart00671 323848000308 Sel1-like repeats; Region: SEL1; smart00671 323848000309 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323848000310 Sel1-like repeats; Region: SEL1; smart00671 323848000311 Sel1-like repeats; Region: SEL1; smart00671 323848000312 Sel1-like repeats; Region: SEL1; smart00671 323848000313 Sel1-like repeats; Region: SEL1; smart00671 323848000314 Sel1-like repeats; Region: SEL1; smart00671 323848000315 Protein of unknown function (DUF445); Region: DUF445; pfam04286 323848000316 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 323848000317 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 323848000318 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 323848000319 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 323848000320 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 323848000321 catalytic residues [active] 323848000322 catalytic nucleophile [active] 323848000323 Recombinase; Region: Recombinase; pfam07508 323848000324 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 323848000325 Transposase; Region: HTH_Tnp_1; pfam01527 323848000326 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 323848000327 Integrase core domain; Region: rve; pfam00665 323848000328 Integrase core domain; Region: rve_3; pfam13683 323848000329 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 323848000330 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 323848000331 Zinc-dependent metalloprotease; MMP_like sub-family 3. A group of bacterial and fungal metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_3; cd04327 323848000332 active site 323848000333 Phage-related protein [Function unknown]; Region: COG4679 323848000334 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 323848000335 non-specific DNA binding site [nucleotide binding]; other site 323848000336 salt bridge; other site 323848000337 sequence-specific DNA binding site [nucleotide binding]; other site 323848000338 hypothetical protein; Provisional; Region: PRK01184 323848000339 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 323848000340 catalytic motif [active] 323848000341 Zn binding site [ion binding]; other site 323848000342 P-loop containing region of AAA domain; Region: AAA_29; cl17516 323848000343 AAA domain; Region: AAA_23; pfam13476 323848000344 AAA domain; Region: AAA_21; pfam13304 323848000345 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323848000346 ABC transporter signature motif; other site 323848000347 Walker B; other site 323848000348 D-loop; other site 323848000349 H-loop/switch region; other site 323848000350 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 323848000351 active site 323848000352 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 323848000353 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 323848000354 DNA binding site [nucleotide binding] 323848000355 active site 323848000356 Int/Topo IB signature motif; other site 323848000357 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 323848000358 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 323848000359 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 323848000360 Membrane fusogenic activity; Region: BMFP; pfam04380 323848000361 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 323848000362 Phosphotransferase enzyme family; Region: APH; pfam01636 323848000363 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 323848000364 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 323848000365 Substrate binding site; other site 323848000366 metal-binding site 323848000367 proline aminopeptidase P II; Provisional; Region: PRK10879 323848000368 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 323848000369 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 323848000370 active site 323848000371 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 323848000372 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 323848000373 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 323848000374 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 323848000375 FMN binding site [chemical binding]; other site 323848000376 active site 323848000377 catalytic residues [active] 323848000378 substrate binding site [chemical binding]; other site 323848000379 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 323848000380 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 323848000381 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 323848000382 purine monophosphate binding site [chemical binding]; other site 323848000383 dimer interface [polypeptide binding]; other site 323848000384 putative catalytic residues [active] 323848000385 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 323848000386 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 323848000387 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 323848000388 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 323848000389 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 323848000390 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 323848000391 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 323848000392 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 323848000393 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 323848000394 Transposase; Region: HTH_Tnp_1; pfam01527 323848000395 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 323848000396 HTH-like domain; Region: HTH_21; pfam13276 323848000397 Integrase core domain; Region: rve; pfam00665 323848000398 Integrase core domain; Region: rve_3; pfam13683 323848000399 Cupin-like domain; Region: Cupin_8; pfam13621 323848000400 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 323848000401 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 323848000402 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323848000403 Walker B; other site 323848000404 D-loop; other site 323848000405 H-loop/switch region; other site 323848000406 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 323848000407 nucleoside/Zn binding site; other site 323848000408 dimer interface [polypeptide binding]; other site 323848000409 catalytic motif [active] 323848000410 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 323848000411 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323848000412 Coenzyme A binding pocket [chemical binding]; other site 323848000413 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 323848000414 Uncharacterized conserved protein [Function unknown]; Region: COG1656 323848000415 Protein of unknown function DUF82; Region: DUF82; pfam01927 323848000416 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 323848000417 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 323848000418 S-adenosylmethionine binding site [chemical binding]; other site 323848000419 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 323848000420 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 323848000421 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 323848000422 S-adenosylmethionine binding site [chemical binding]; other site 323848000423 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 323848000424 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 323848000425 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 323848000426 Catalytic site; other site 323848000427 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 323848000428 Response regulator receiver domain; Region: Response_reg; pfam00072 323848000429 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 323848000430 active site 323848000431 phosphorylation site [posttranslational modification] 323848000432 intermolecular recognition site; other site 323848000433 dimerization interface [polypeptide binding]; other site 323848000434 hypothetical protein; Provisional; Region: PRK10279 323848000435 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 323848000436 active site 323848000437 nucleophile elbow; other site 323848000438 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 323848000439 dimerization interface [polypeptide binding]; other site 323848000440 DNA binding residues [nucleotide binding] 323848000441 transcriptional regulator EpsA; Region: EpsA; TIGR03020 323848000442 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 323848000443 HTH-like domain; Region: HTH_21; pfam13276 323848000444 Integrase core domain; Region: rve; pfam00665 323848000445 Integrase core domain; Region: rve_3; pfam13683 323848000446 Transposase; Region: HTH_Tnp_1; cl17663 323848000447 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 323848000448 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323848000449 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 323848000450 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 323848000451 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 323848000452 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323848000453 tartronate semialdehyde reductase; Provisional; Region: PRK15059 323848000454 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 323848000455 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 323848000456 FAD binding domain; Region: FAD_binding_4; pfam01565 323848000457 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 323848000458 FAD binding domain; Region: FAD_binding_4; pfam01565 323848000459 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 323848000460 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 323848000461 Cysteine-rich domain; Region: CCG; pfam02754 323848000462 Cysteine-rich domain; Region: CCG; pfam02754 323848000463 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 323848000464 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 323848000465 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 323848000466 methane monooxygenase/ammonia monooxygenase, subunit C; Region: CH4_NH3mon_ox_C; TIGR03078 323848000467 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 323848000468 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 323848000469 recombination factor protein RarA; Reviewed; Region: PRK13342 323848000470 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848000471 Walker A motif; other site 323848000472 ATP binding site [chemical binding]; other site 323848000473 Walker B motif; other site 323848000474 arginine finger; other site 323848000475 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 323848000476 seryl-tRNA synthetase; Provisional; Region: PRK05431 323848000477 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 323848000478 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 323848000479 dimer interface [polypeptide binding]; other site 323848000480 active site 323848000481 motif 1; other site 323848000482 motif 2; other site 323848000483 motif 3; other site 323848000484 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 323848000485 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 323848000486 catalytic residues [active] 323848000487 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 323848000488 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 323848000489 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 323848000490 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323848000491 Cytochrome c; Region: Cytochrom_C; pfam00034 323848000492 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 323848000493 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 323848000494 Subunit I/III interface [polypeptide binding]; other site 323848000495 D-pathway; other site 323848000496 Subunit I/VIIc interface [polypeptide binding]; other site 323848000497 Subunit I/IV interface [polypeptide binding]; other site 323848000498 Subunit I/II interface [polypeptide binding]; other site 323848000499 Low-spin heme (heme a) binding site [chemical binding]; other site 323848000500 Subunit I/VIIa interface [polypeptide binding]; other site 323848000501 Subunit I/VIa interface [polypeptide binding]; other site 323848000502 Dimer interface; other site 323848000503 Putative water exit pathway; other site 323848000504 Binuclear center (heme a3/CuB) [ion binding]; other site 323848000505 K-pathway; other site 323848000506 Subunit I/Vb interface [polypeptide binding]; other site 323848000507 Putative proton exit pathway; other site 323848000508 Subunit I/VIb interface; other site 323848000509 Subunit I/VIc interface [polypeptide binding]; other site 323848000510 Electron transfer pathway; other site 323848000511 Subunit I/VIIIb interface [polypeptide binding]; other site 323848000512 Subunit I/VIIb interface [polypeptide binding]; other site 323848000513 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 323848000514 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 323848000515 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 323848000516 Subunit III/VIIa interface [polypeptide binding]; other site 323848000517 Phospholipid binding site [chemical binding]; other site 323848000518 Subunit I/III interface [polypeptide binding]; other site 323848000519 Subunit III/VIb interface [polypeptide binding]; other site 323848000520 Subunit III/VIa interface; other site 323848000521 Subunit III/Vb interface [polypeptide binding]; other site 323848000522 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 323848000523 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 323848000524 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 323848000525 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 323848000526 UbiA prenyltransferase family; Region: UbiA; pfam01040 323848000527 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 323848000528 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 323848000529 Cu(I) binding site [ion binding]; other site 323848000530 FAD binding domain; Region: FAD_binding_4; pfam01565 323848000531 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 323848000532 BON domain; Region: BON; pfam04972 323848000533 BON domain; Region: BON; pfam04972 323848000534 hypothetical protein; Reviewed; Region: PRK12497 323848000535 Predicted methyltransferases [General function prediction only]; Region: COG0313 323848000536 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 323848000537 putative SAM binding site [chemical binding]; other site 323848000538 putative homodimer interface [polypeptide binding]; other site 323848000539 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 323848000540 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 323848000541 catalytic core [active] 323848000542 PRC-barrel domain; Region: PRC; pfam05239 323848000543 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 323848000544 potassium uptake protein; Region: kup; TIGR00794 323848000545 CHASE domain; Region: CHASE; pfam03924 323848000546 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 323848000547 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 323848000548 putative active site [active] 323848000549 heme pocket [chemical binding]; other site 323848000550 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 323848000551 putative active site [active] 323848000552 heme pocket [chemical binding]; other site 323848000553 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323848000554 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323848000555 metal binding site [ion binding]; metal-binding site 323848000556 active site 323848000557 I-site; other site 323848000558 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 323848000559 exonuclease subunit SbcD; Provisional; Region: PRK10966 323848000560 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 323848000561 active site 323848000562 metal binding site [ion binding]; metal-binding site 323848000563 DNA binding site [nucleotide binding] 323848000564 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 323848000565 exonuclease subunit SbcC; Provisional; Region: PRK10246 323848000566 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 323848000567 Walker A/P-loop; other site 323848000568 ATP binding site [chemical binding]; other site 323848000569 Q-loop/lid; other site 323848000570 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 323848000571 ABC transporter signature motif; other site 323848000572 Walker B; other site 323848000573 D-loop; other site 323848000574 H-loop/switch region; other site 323848000575 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 323848000576 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323848000577 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 323848000578 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 323848000579 active site 323848000580 metal binding site [ion binding]; metal-binding site 323848000581 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 323848000582 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 323848000583 putative acyl-acceptor binding pocket; other site 323848000584 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 323848000585 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 323848000586 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 323848000587 substrate binding site [chemical binding]; other site 323848000588 ATP binding site [chemical binding]; other site 323848000589 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 323848000590 tetramer interface [polypeptide binding]; other site 323848000591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848000592 catalytic residue [active] 323848000593 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 323848000594 dimer interface [polypeptide binding]; other site 323848000595 catalytic triad [active] 323848000596 peroxidatic and resolving cysteines [active] 323848000597 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 323848000598 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 323848000599 tetramer interface [polypeptide binding]; other site 323848000600 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848000601 catalytic residue [active] 323848000602 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 323848000603 lipoyl attachment site [posttranslational modification]; other site 323848000604 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 323848000605 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 323848000606 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 323848000607 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848000608 Walker A motif; other site 323848000609 ATP binding site [chemical binding]; other site 323848000610 Walker B motif; other site 323848000611 Glutamate-cysteine ligase; Region: GshA; pfam08886 323848000612 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 323848000613 glutathione synthetase; Provisional; Region: PRK05246 323848000614 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 323848000615 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 323848000616 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 323848000617 active pocket/dimerization site; other site 323848000618 active site 323848000619 phosphorylation site [posttranslational modification] 323848000620 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 323848000621 dimerization domain swap beta strand [polypeptide binding]; other site 323848000622 regulatory protein interface [polypeptide binding]; other site 323848000623 active site 323848000624 regulatory phosphorylation site [posttranslational modification]; other site 323848000625 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 323848000626 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 323848000627 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 323848000628 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 323848000629 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 323848000630 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 323848000631 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323848000632 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 323848000633 S-adenosylmethionine binding site [chemical binding]; other site 323848000634 muropeptide transporter; Reviewed; Region: ampG; PRK11902 323848000635 AmpG-like permease; Region: 2A0125; TIGR00901 323848000636 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 323848000637 putative active site [active] 323848000638 putative catalytic site [active] 323848000639 putative DNA binding site [nucleotide binding]; other site 323848000640 putative phosphate binding site [ion binding]; other site 323848000641 metal binding site A [ion binding]; metal-binding site 323848000642 putative AP binding site [nucleotide binding]; other site 323848000643 putative metal binding site B [ion binding]; other site 323848000644 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323848000645 active site 323848000646 Late embryogenesis abundant protein; Region: LEA_2; cl12118 323848000647 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 323848000648 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 323848000649 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323848000650 catalytic residue [active] 323848000651 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 323848000652 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 323848000653 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323848000654 NAD(P) binding site [chemical binding]; other site 323848000655 active site 323848000656 acyl-CoA synthetase; Validated; Region: PRK09192 323848000657 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 323848000658 acyl-activating enzyme (AAE) consensus motif; other site 323848000659 active site 323848000660 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 323848000661 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 323848000662 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 323848000663 [2Fe-2S] cluster binding site [ion binding]; other site 323848000664 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 323848000665 alpha subunit interface [polypeptide binding]; other site 323848000666 active site 323848000667 substrate binding site [chemical binding]; other site 323848000668 Fe binding site [ion binding]; other site 323848000669 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 323848000670 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 323848000671 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 323848000672 substrate binding pocket [chemical binding]; other site 323848000673 chain length determination region; other site 323848000674 substrate-Mg2+ binding site; other site 323848000675 catalytic residues [active] 323848000676 aspartate-rich region 1; other site 323848000677 active site lid residues [active] 323848000678 aspartate-rich region 2; other site 323848000679 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 323848000680 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 323848000681 TPP-binding site; other site 323848000682 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 323848000683 PYR/PP interface [polypeptide binding]; other site 323848000684 dimer interface [polypeptide binding]; other site 323848000685 TPP binding site [chemical binding]; other site 323848000686 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 323848000687 putative GTP cyclohydrolase; Provisional; Region: PRK13674 323848000688 transcriptional regulator EpsA; Region: EpsA; TIGR03020 323848000689 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 323848000690 DNA binding residues [nucleotide binding] 323848000691 dimerization interface [polypeptide binding]; other site 323848000692 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 323848000693 Bacterial sugar transferase; Region: Bac_transf; pfam02397 323848000694 exopolysaccharide biosynthesis operon protein EpsL; Region: EpsL; TIGR03014 323848000695 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 323848000696 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 323848000697 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 323848000698 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 323848000699 SLBB domain; Region: SLBB; pfam10531 323848000700 SLBB domain; Region: SLBB; pfam10531 323848000701 chain length determinant protein EpsF; Region: EpsF; TIGR03017 323848000702 Chain length determinant protein; Region: Wzz; pfam02706 323848000703 Chain length determinant protein; Region: Wzz; cl15801 323848000704 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 323848000705 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 323848000706 Predicted integral membrane protein [Function unknown]; Region: COG5652 323848000707 exosortase B; Region: exosortase_2; TIGR03113 323848000708 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 323848000709 EpsI family protein; Region: EpsI_fam; TIGR02914 323848000710 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 323848000711 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 323848000712 O-Antigen ligase; Region: Wzy_C; pfam04932 323848000713 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323848000714 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 323848000715 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 323848000716 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323848000717 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 323848000718 S-adenosylmethionine binding site [chemical binding]; other site 323848000719 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323848000720 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 323848000721 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 323848000722 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1817 323848000723 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 323848000724 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 323848000725 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 323848000726 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 323848000727 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 323848000728 active site 323848000729 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 323848000730 homodimer interface [polypeptide binding]; other site 323848000731 UDP-glucose 4-epimerase; Region: PLN02240 323848000732 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 323848000733 NAD binding site [chemical binding]; other site 323848000734 homodimer interface [polypeptide binding]; other site 323848000735 active site 323848000736 substrate binding site [chemical binding]; other site 323848000737 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 323848000738 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 323848000739 Substrate binding site; other site 323848000740 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 323848000741 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 323848000742 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 323848000743 RNA binding surface [nucleotide binding]; other site 323848000744 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 323848000745 active site 323848000746 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 323848000747 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 323848000748 NAD binding site [chemical binding]; other site 323848000749 substrate binding site [chemical binding]; other site 323848000750 homodimer interface [polypeptide binding]; other site 323848000751 active site 323848000752 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 323848000753 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 323848000754 NADP binding site [chemical binding]; other site 323848000755 active site 323848000756 putative substrate binding site [chemical binding]; other site 323848000757 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 323848000758 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 323848000759 substrate binding site; other site 323848000760 tetramer interface; other site 323848000761 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 323848000762 Fatty acid desaturase; Region: FA_desaturase; pfam00487 323848000763 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cd01060 323848000764 putative di-iron ligands [ion binding]; other site 323848000765 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 323848000766 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 323848000767 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 323848000768 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 323848000769 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 323848000770 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 323848000771 NAD binding site [chemical binding]; other site 323848000772 substrate binding site [chemical binding]; other site 323848000773 homodimer interface [polypeptide binding]; other site 323848000774 active site 323848000775 TPR repeat; Region: TPR_11; pfam13414 323848000776 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 323848000777 TPR motif; other site 323848000778 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 323848000779 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 323848000780 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 323848000781 acyl carrier protein; Provisional; Region: PRK07081 323848000782 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 323848000783 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 323848000784 Ligand binding site; other site 323848000785 Putative Catalytic site; other site 323848000786 DXD motif; other site 323848000787 Predicted membrane protein [Function unknown]; Region: COG2246 323848000788 GtrA-like protein; Region: GtrA; pfam04138 323848000789 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 323848000790 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 323848000791 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 323848000792 Ligand binding site; other site 323848000793 Putative Catalytic site; other site 323848000794 DXD motif; other site 323848000795 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323848000796 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 323848000797 S-adenosylmethionine binding site [chemical binding]; other site 323848000798 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323848000799 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 323848000800 dimer interface [polypeptide binding]; other site 323848000801 substrate binding site [chemical binding]; other site 323848000802 metal binding site [ion binding]; metal-binding site 323848000803 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 323848000804 Acid Phosphatase; Region: Acid_PPase; cl17256 323848000805 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 323848000806 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 323848000807 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 323848000808 putative trimer interface [polypeptide binding]; other site 323848000809 putative CoA binding site [chemical binding]; other site 323848000810 WbqC-like protein family; Region: WbqC; pfam08889 323848000811 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 323848000812 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323848000813 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 323848000814 S-adenosylmethionine binding site [chemical binding]; other site 323848000815 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 323848000816 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 323848000817 inhibitor-cofactor binding pocket; inhibition site 323848000818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848000819 catalytic residue [active] 323848000820 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 323848000821 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 323848000822 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 323848000823 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323848000824 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 323848000825 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 323848000826 acyl-activating enzyme (AAE) consensus motif; other site 323848000827 active site 323848000828 AMP binding site [chemical binding]; other site 323848000829 CoA binding site [chemical binding]; other site 323848000830 colanic acid exporter; Provisional; Region: PRK10459 323848000831 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 323848000832 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 323848000833 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 323848000834 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323848000835 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 323848000836 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 323848000837 active site 323848000838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 323848000839 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 323848000840 ligand-binding site [chemical binding]; other site 323848000841 O-Antigen ligase; Region: Wzy_C; cl04850 323848000842 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 323848000843 putative active site [active] 323848000844 putative metal binding site [ion binding]; other site 323848000845 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 323848000846 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 323848000847 ATP synthase I chain; Region: ATP_synt_I; cl09170 323848000848 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 323848000849 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 323848000850 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 323848000851 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 323848000852 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 323848000853 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 323848000854 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 323848000855 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 323848000856 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 323848000857 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 323848000858 beta subunit interaction interface [polypeptide binding]; other site 323848000859 Walker A motif; other site 323848000860 ATP binding site [chemical binding]; other site 323848000861 Walker B motif; other site 323848000862 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 323848000863 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 323848000864 core domain interface [polypeptide binding]; other site 323848000865 delta subunit interface [polypeptide binding]; other site 323848000866 epsilon subunit interface [polypeptide binding]; other site 323848000867 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 323848000868 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 323848000869 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 323848000870 alpha subunit interaction interface [polypeptide binding]; other site 323848000871 Walker A motif; other site 323848000872 ATP binding site [chemical binding]; other site 323848000873 Walker B motif; other site 323848000874 inhibitor binding site; inhibition site 323848000875 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 323848000876 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 323848000877 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 323848000878 gamma subunit interface [polypeptide binding]; other site 323848000879 epsilon subunit interface [polypeptide binding]; other site 323848000880 LBP interface [polypeptide binding]; other site 323848000881 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 323848000882 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 323848000883 Substrate binding site; other site 323848000884 Mg++ binding site; other site 323848000885 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 323848000886 active site 323848000887 substrate binding site [chemical binding]; other site 323848000888 CoA binding site [chemical binding]; other site 323848000889 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 323848000890 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 323848000891 glutaminase active site [active] 323848000892 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 323848000893 dimer interface [polypeptide binding]; other site 323848000894 active site 323848000895 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 323848000896 dimer interface [polypeptide binding]; other site 323848000897 active site 323848000898 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 323848000899 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 323848000900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 323848000901 Sporulation related domain; Region: SPOR; pfam05036 323848000902 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 323848000903 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 323848000904 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 323848000905 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 323848000906 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 323848000907 rod shape-determining protein MreC; Provisional; Region: PRK13922 323848000908 rod shape-determining protein MreC; Region: MreC; pfam04085 323848000909 rod shape-determining protein MreB; Provisional; Region: PRK13927 323848000910 MreB and similar proteins; Region: MreB_like; cd10225 323848000911 nucleotide binding site [chemical binding]; other site 323848000912 Mg binding site [ion binding]; other site 323848000913 putative protofilament interaction site [polypeptide binding]; other site 323848000914 RodZ interaction site [polypeptide binding]; other site 323848000915 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 323848000916 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 323848000917 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 323848000918 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 323848000919 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 323848000920 GatB domain; Region: GatB_Yqey; smart00845 323848000921 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 323848000922 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 323848000923 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 323848000924 SelR domain; Region: SelR; pfam01641 323848000925 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 323848000926 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 323848000927 PAS domain; Region: PAS_9; pfam13426 323848000928 putative active site [active] 323848000929 heme pocket [chemical binding]; other site 323848000930 PAS domain S-box; Region: sensory_box; TIGR00229 323848000931 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 323848000932 putative active site [active] 323848000933 heme pocket [chemical binding]; other site 323848000934 PAS domain S-box; Region: sensory_box; TIGR00229 323848000935 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 323848000936 putative active site [active] 323848000937 heme pocket [chemical binding]; other site 323848000938 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 323848000939 PAS domain; Region: PAS_9; pfam13426 323848000940 putative active site [active] 323848000941 heme pocket [chemical binding]; other site 323848000942 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323848000943 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323848000944 metal binding site [ion binding]; metal-binding site 323848000945 active site 323848000946 I-site; other site 323848000947 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 323848000948 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 323848000949 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 323848000950 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 323848000951 TPR repeat; Region: TPR_11; pfam13414 323848000952 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 323848000953 binding surface 323848000954 TPR motif; other site 323848000955 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323848000956 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 323848000957 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323848000958 dimer interface [polypeptide binding]; other site 323848000959 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 323848000960 putative CheW interface [polypeptide binding]; other site 323848000961 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 323848000962 putative binding surface; other site 323848000963 active site 323848000964 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 323848000965 ATP binding site [chemical binding]; other site 323848000966 Mg2+ binding site [ion binding]; other site 323848000967 G-X-G motif; other site 323848000968 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 323848000969 Response regulator receiver domain; Region: Response_reg; pfam00072 323848000970 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 323848000971 active site 323848000972 phosphorylation site [posttranslational modification] 323848000973 intermolecular recognition site; other site 323848000974 dimerization interface [polypeptide binding]; other site 323848000975 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 323848000976 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 323848000977 active site 323848000978 phosphorylation site [posttranslational modification] 323848000979 intermolecular recognition site; other site 323848000980 dimerization interface [polypeptide binding]; other site 323848000981 CheB methylesterase; Region: CheB_methylest; pfam01339 323848000982 Response regulator receiver domain; Region: Response_reg; pfam00072 323848000983 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 323848000984 active site 323848000985 phosphorylation site [posttranslational modification] 323848000986 intermolecular recognition site; other site 323848000987 dimerization interface [polypeptide binding]; other site 323848000988 GAF domain; Region: GAF_2; pfam13185 323848000989 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 323848000990 GAF domain; Region: GAF; pfam01590 323848000991 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323848000992 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323848000993 metal binding site [ion binding]; metal-binding site 323848000994 active site 323848000995 I-site; other site 323848000996 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 323848000997 pteridine reductase; Provisional; Region: PRK09135 323848000998 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 323848000999 NADP binding site [chemical binding]; other site 323848001000 substrate binding pocket [chemical binding]; other site 323848001001 active site 323848001002 Uncharacterized conserved protein [Function unknown]; Region: COG1565 323848001003 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 323848001004 FOG: CBS domain [General function prediction only]; Region: COG0517 323848001005 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 323848001006 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 323848001007 Cysteine-rich domain; Region: CCG; pfam02754 323848001008 Cysteine-rich domain; Region: CCG; pfam02754 323848001009 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 323848001010 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 323848001011 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323848001012 catalytic residue [active] 323848001013 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 323848001014 diiron binding motif [ion binding]; other site 323848001015 OsmC-like protein; Region: OsmC; cl00767 323848001016 Uncharacterized conserved protein [Function unknown]; Region: COG1434 323848001017 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 323848001018 putative active site [active] 323848001019 Cytochrome c; Region: Cytochrom_C; cl11414 323848001020 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 323848001021 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 323848001022 catalytic residues [active] 323848001023 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 323848001024 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 323848001025 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 323848001026 S-adenosylmethionine binding site [chemical binding]; other site 323848001027 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 323848001028 putative lipid binding site [chemical binding]; other site 323848001029 hypothetical protein; Provisional; Region: PRK02237 323848001030 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 323848001031 Protein of unknown function, DUF393; Region: DUF393; pfam04134 323848001032 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 323848001033 active site 323848001034 substrate binding pocket [chemical binding]; other site 323848001035 dimer interface [polypeptide binding]; other site 323848001036 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 323848001037 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323848001038 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 323848001039 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 323848001040 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 323848001041 homodimer interface [polypeptide binding]; other site 323848001042 NADP binding site [chemical binding]; other site 323848001043 substrate binding site [chemical binding]; other site 323848001044 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 323848001045 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 323848001046 dimer interface [polypeptide binding]; other site 323848001047 TPP-binding site [chemical binding]; other site 323848001048 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 323848001049 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 323848001050 E3 interaction surface; other site 323848001051 lipoyl attachment site [posttranslational modification]; other site 323848001052 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 323848001053 e3 binding domain; Region: E3_binding; pfam02817 323848001054 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 323848001055 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 323848001056 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 323848001057 active site 323848001058 (T/H)XGH motif; other site 323848001059 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 323848001060 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 323848001061 Maf-like protein; Region: Maf; pfam02545 323848001062 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 323848001063 active site 323848001064 dimer interface [polypeptide binding]; other site 323848001065 ribonuclease G; Provisional; Region: PRK11712 323848001066 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 323848001067 homodimer interface [polypeptide binding]; other site 323848001068 oligonucleotide binding site [chemical binding]; other site 323848001069 N-acyl amino acid synthase, PEP-CTERM/exosortase system-associated; Region: exosort_acyl; TIGR03694 323848001070 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323848001071 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 323848001072 Walker A/P-loop; other site 323848001073 ATP binding site [chemical binding]; other site 323848001074 Q-loop/lid; other site 323848001075 ABC transporter signature motif; other site 323848001076 Walker B; other site 323848001077 D-loop; other site 323848001078 H-loop/switch region; other site 323848001079 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323848001080 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 323848001081 FtsX-like permease family; Region: FtsX; pfam02687 323848001082 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 323848001083 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323848001084 FtsX-like permease family; Region: FtsX; pfam02687 323848001085 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 323848001086 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 323848001087 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 323848001088 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide acyltransferase (E2) component, and related enzymes [Energy production and conversion]; Region: AceF; COG0508 323848001089 hypothetical protein; Validated; Region: PRK08223 323848001090 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 323848001091 ATP binding site [chemical binding]; other site 323848001092 substrate interface [chemical binding]; other site 323848001093 hypothetical protein; Provisional; Region: PRK07877 323848001094 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 323848001095 dimer interface [polypeptide binding]; other site 323848001096 hypothetical protein; Provisional; Region: PRK14852 323848001097 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 323848001098 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 323848001099 TPR motif; other site 323848001100 binding surface 323848001101 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 323848001102 binding surface 323848001103 TPR motif; other site 323848001104 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 323848001105 binding surface 323848001106 TPR motif; other site 323848001107 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 323848001108 binding surface 323848001109 TPR motif; other site 323848001110 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 323848001111 TPR motif; other site 323848001112 binding surface 323848001113 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 323848001114 binding surface 323848001115 TPR motif; other site 323848001116 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 323848001117 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 323848001118 active site 323848001119 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 323848001120 putative catalytic residue [active] 323848001121 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 323848001122 RNA methyltransferase, RsmE family; Region: TIGR00046 323848001123 N-acetylglutamate synthase; Validated; Region: PRK05279 323848001124 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 323848001125 putative feedback inhibition sensing region; other site 323848001126 putative nucleotide binding site [chemical binding]; other site 323848001127 putative substrate binding site [chemical binding]; other site 323848001128 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323848001129 Coenzyme A binding pocket [chemical binding]; other site 323848001130 oxidative damage protection protein; Provisional; Region: PRK05408 323848001131 polyphosphate kinase; Provisional; Region: PRK05443 323848001132 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 323848001133 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 323848001134 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 323848001135 putative domain interface [polypeptide binding]; other site 323848001136 putative active site [active] 323848001137 catalytic site [active] 323848001138 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 323848001139 putative domain interface [polypeptide binding]; other site 323848001140 putative active site [active] 323848001141 catalytic site [active] 323848001142 Uncharacterized conserved protein [Function unknown]; Region: COG3025 323848001143 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 323848001144 putative active site [active] 323848001145 putative metal binding residues [ion binding]; other site 323848001146 signature motif; other site 323848001147 putative triphosphate binding site [ion binding]; other site 323848001148 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 323848001149 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 323848001150 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 323848001151 intersubunit interface [polypeptide binding]; other site 323848001152 active site 323848001153 zinc binding site [ion binding]; other site 323848001154 Na+ binding site [ion binding]; other site 323848001155 pyruvate kinase; Provisional; Region: PRK05826 323848001156 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 323848001157 domain interfaces; other site 323848001158 active site 323848001159 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; cd00318 323848001160 Phosphoglycerate kinase; Region: PGK; pfam00162 323848001161 substrate binding site [chemical binding]; other site 323848001162 hinge regions; other site 323848001163 ADP binding site [chemical binding]; other site 323848001164 catalytic site [active] 323848001165 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 323848001166 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 323848001167 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 323848001168 transketolase; Reviewed; Region: PRK12753 323848001169 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 323848001170 TPP-binding site [chemical binding]; other site 323848001171 dimer interface [polypeptide binding]; other site 323848001172 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 323848001173 PYR/PP interface [polypeptide binding]; other site 323848001174 dimer interface [polypeptide binding]; other site 323848001175 TPP binding site [chemical binding]; other site 323848001176 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 323848001177 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 323848001178 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 323848001179 active site 323848001180 phosphorylation site [posttranslational modification] 323848001181 intermolecular recognition site; other site 323848001182 dimerization interface [polypeptide binding]; other site 323848001183 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 323848001184 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 323848001185 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 323848001186 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 323848001187 dimerization interface [polypeptide binding]; other site 323848001188 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848001189 dimer interface [polypeptide binding]; other site 323848001190 phosphorylation site [posttranslational modification] 323848001191 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 323848001192 ATP binding site [chemical binding]; other site 323848001193 Mg2+ binding site [ion binding]; other site 323848001194 G-X-G motif; other site 323848001195 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 323848001196 16S rRNA methyltransferase B; Provisional; Region: PRK10901 323848001197 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 323848001198 S-adenosylmethionine binding site [chemical binding]; other site 323848001199 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 323848001200 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 323848001201 putative active site [active] 323848001202 substrate binding site [chemical binding]; other site 323848001203 putative cosubstrate binding site; other site 323848001204 catalytic site [active] 323848001205 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 323848001206 substrate binding site [chemical binding]; other site 323848001207 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 323848001208 active site 323848001209 catalytic residues [active] 323848001210 metal binding site [ion binding]; metal-binding site 323848001211 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 323848001212 DNA protecting protein DprA; Region: dprA; TIGR00732 323848001213 DNA topoisomerase III; Validated; Region: PRK08173 323848001214 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 323848001215 active site 323848001216 putative interdomain interaction site [polypeptide binding]; other site 323848001217 putative metal-binding site [ion binding]; other site 323848001218 putative nucleotide binding site [chemical binding]; other site 323848001219 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 323848001220 domain I; other site 323848001221 DNA binding groove [nucleotide binding] 323848001222 phosphate binding site [ion binding]; other site 323848001223 domain II; other site 323848001224 domain III; other site 323848001225 nucleotide binding site [chemical binding]; other site 323848001226 catalytic site [active] 323848001227 domain IV; other site 323848001228 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 323848001229 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 323848001230 acyl carrier protein; Provisional; Region: acpP; PRK00982 323848001231 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 323848001232 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 323848001233 dimer interface [polypeptide binding]; other site 323848001234 active site 323848001235 MobA-like NTP transferase domain; Region: NTP_transf_3; pfam12804 323848001236 active site 323848001237 Predicted permeases [General function prediction only]; Region: COG0795 323848001238 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 323848001239 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 323848001240 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 323848001241 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 323848001242 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 323848001243 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 323848001244 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 323848001245 ligand binding site; other site 323848001246 tetramer interface; other site 323848001247 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 323848001248 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 323848001249 active site 323848001250 motif I; other site 323848001251 motif II; other site 323848001252 NeuB family; Region: NeuB; pfam03102 323848001253 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 323848001254 ligand binding site; other site 323848001255 tetramer interface; other site 323848001256 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 323848001257 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 323848001258 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 323848001259 flagellin modification protein A; Provisional; Region: PRK09186 323848001260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323848001261 NAD(P) binding site [chemical binding]; other site 323848001262 active site 323848001263 PLD-like domain; Region: PLDc_2; pfam13091 323848001264 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 323848001265 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 323848001266 PLD-like domain; Region: PLDc_2; pfam13091 323848001267 putative active site [active] 323848001268 catalytic site [active] 323848001269 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 323848001270 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 323848001271 active site 323848001272 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 323848001273 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 323848001274 O-Antigen ligase; Region: Wzy_C; pfam04932 323848001275 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 323848001276 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848001277 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848001278 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848001279 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 323848001280 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 323848001281 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 323848001282 catalytic core [active] 323848001283 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 323848001284 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 323848001285 nucleotide binding site/active site [active] 323848001286 HIT family signature motif; other site 323848001287 catalytic residue [active] 323848001288 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 323848001289 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 323848001290 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 323848001291 active site 323848001292 metal-binding site 323848001293 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 323848001294 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 323848001295 motif II; other site 323848001296 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 323848001297 extended (e) SDRs; Region: SDR_e; cd08946 323848001298 NAD(P) binding site [chemical binding]; other site 323848001299 active site 323848001300 substrate binding site [chemical binding]; other site 323848001301 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 323848001302 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 323848001303 putative ligand binding site [chemical binding]; other site 323848001304 putative NAD binding site [chemical binding]; other site 323848001305 catalytic site [active] 323848001306 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 323848001307 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 323848001308 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 323848001309 Ligand binding site; other site 323848001310 oligomer interface; other site 323848001311 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 323848001312 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 323848001313 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 323848001314 Probable Catalytic site; other site 323848001315 metal-binding site 323848001316 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 323848001317 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 323848001318 oligomer interface [polypeptide binding]; other site 323848001319 metal binding site [ion binding]; metal-binding site 323848001320 metal binding site [ion binding]; metal-binding site 323848001321 Cl binding site [ion binding]; other site 323848001322 aspartate ring; other site 323848001323 basic sphincter; other site 323848001324 putative hydrophobic gate; other site 323848001325 periplasmic entrance; other site 323848001326 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 323848001327 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 323848001328 transcriptional regulator PhoU; Provisional; Region: PRK11115 323848001329 PhoU domain; Region: PhoU; pfam01895 323848001330 PhoU domain; Region: PhoU; pfam01895 323848001331 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 323848001332 tetramer (dimer of dimers) interface [polypeptide binding]; other site 323848001333 active site 323848001334 dimer interface [polypeptide binding]; other site 323848001335 threonine dehydratase; Reviewed; Region: PRK09224 323848001336 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 323848001337 tetramer interface [polypeptide binding]; other site 323848001338 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848001339 catalytic residue [active] 323848001340 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 323848001341 putative Ile/Val binding site [chemical binding]; other site 323848001342 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 323848001343 putative Ile/Val binding site [chemical binding]; other site 323848001344 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 323848001345 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 323848001346 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 323848001347 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 323848001348 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323848001349 Coenzyme A binding pocket [chemical binding]; other site 323848001350 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 323848001351 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 323848001352 GDP-binding site [chemical binding]; other site 323848001353 ACT binding site; other site 323848001354 IMP binding site; other site 323848001355 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 323848001356 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 323848001357 dimer interface [polypeptide binding]; other site 323848001358 motif 1; other site 323848001359 active site 323848001360 motif 2; other site 323848001361 motif 3; other site 323848001362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 323848001363 HflC protein; Region: hflC; TIGR01932 323848001364 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 323848001365 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 323848001366 HflK protein; Region: hflK; TIGR01933 323848001367 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 323848001368 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 323848001369 HflX GTPase family; Region: HflX; cd01878 323848001370 G1 box; other site 323848001371 GTP/Mg2+ binding site [chemical binding]; other site 323848001372 Switch I region; other site 323848001373 G2 box; other site 323848001374 G3 box; other site 323848001375 Switch II region; other site 323848001376 G4 box; other site 323848001377 G5 box; other site 323848001378 bacterial Hfq-like; Region: Hfq; cd01716 323848001379 hexamer interface [polypeptide binding]; other site 323848001380 Sm1 motif; other site 323848001381 RNA binding site [nucleotide binding]; other site 323848001382 Sm2 motif; other site 323848001383 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 323848001384 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 323848001385 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 323848001386 putative active site [active] 323848001387 Ap4A binding site [chemical binding]; other site 323848001388 nudix motif; other site 323848001389 putative metal binding site [ion binding]; other site 323848001390 prolyl-tRNA synthetase; Provisional; Region: PRK09194 323848001391 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 323848001392 dimer interface [polypeptide binding]; other site 323848001393 motif 1; other site 323848001394 active site 323848001395 motif 2; other site 323848001396 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 323848001397 putative deacylase active site [active] 323848001398 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 323848001399 active site 323848001400 motif 3; other site 323848001401 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 323848001402 anticodon binding site; other site 323848001403 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 323848001404 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 323848001405 catalytic residues [active] 323848001406 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 323848001407 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 323848001408 Transcriptional regulator; Region: Rrf2; cl17282 323848001409 2-isopropylmalate synthase; Validated; Region: PRK00915 323848001410 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 323848001411 active site 323848001412 catalytic residues [active] 323848001413 metal binding site [ion binding]; metal-binding site 323848001414 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 323848001415 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 323848001416 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 323848001417 Cu(I) binding site [ion binding]; other site 323848001418 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 323848001419 Cytochrome c; Region: Cytochrom_C; pfam00034 323848001420 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323848001421 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323848001422 Cytochrome c; Region: Cytochrom_C; pfam00034 323848001423 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 323848001424 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 323848001425 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 323848001426 D-pathway; other site 323848001427 Putative ubiquinol binding site [chemical binding]; other site 323848001428 Low-spin heme (heme b) binding site [chemical binding]; other site 323848001429 Putative water exit pathway; other site 323848001430 Binuclear center (heme o3/CuB) [ion binding]; other site 323848001431 K-pathway; other site 323848001432 Putative proton exit pathway; other site 323848001433 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 323848001434 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 323848001435 Cytochrome c; Region: Cytochrom_C; cl11414 323848001436 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 323848001437 active site 323848001438 zinc binding site [ion binding]; other site 323848001439 PEP-CTERM motif; Region: VPEP; pfam07589 323848001440 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 323848001441 active site 323848001442 zinc binding site [ion binding]; other site 323848001443 PEP-CTERM motif; Region: VPEP; pfam07589 323848001444 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 323848001445 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 323848001446 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 323848001447 phosphoglucomutase; Validated; Region: PRK07564 323848001448 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 323848001449 active site 323848001450 substrate binding site [chemical binding]; other site 323848001451 metal binding site [ion binding]; metal-binding site 323848001452 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 323848001453 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 323848001454 TPP-binding site [chemical binding]; other site 323848001455 dimer interface [polypeptide binding]; other site 323848001456 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 323848001457 PYR/PP interface [polypeptide binding]; other site 323848001458 dimer interface [polypeptide binding]; other site 323848001459 TPP binding site [chemical binding]; other site 323848001460 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 323848001461 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 323848001462 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 323848001463 active site 323848001464 dimer interface [polypeptide binding]; other site 323848001465 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 323848001466 dimer interface [polypeptide binding]; other site 323848001467 active site 323848001468 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 323848001469 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 323848001470 PEP-CTERM motif; Region: VPEP; pfam07589 323848001471 ketol-acid reductoisomerase; Provisional; Region: PRK05479 323848001472 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 323848001473 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 323848001474 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 323848001475 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 323848001476 putative valine binding site [chemical binding]; other site 323848001477 dimer interface [polypeptide binding]; other site 323848001478 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 323848001479 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 323848001480 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 323848001481 PYR/PP interface [polypeptide binding]; other site 323848001482 dimer interface [polypeptide binding]; other site 323848001483 TPP binding site [chemical binding]; other site 323848001484 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 323848001485 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 323848001486 TPP-binding site [chemical binding]; other site 323848001487 dimer interface [polypeptide binding]; other site 323848001488 ferric uptake regulator; Provisional; Region: fur; PRK09462 323848001489 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 323848001490 metal binding site 2 [ion binding]; metal-binding site 323848001491 putative DNA binding helix; other site 323848001492 metal binding site 1 [ion binding]; metal-binding site 323848001493 dimer interface [polypeptide binding]; other site 323848001494 structural Zn2+ binding site [ion binding]; other site 323848001495 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 323848001496 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 323848001497 dihydrodipicolinate reductase; Provisional; Region: PRK00048 323848001498 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 323848001499 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 323848001500 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 323848001501 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 323848001502 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 323848001503 catalytic site [active] 323848001504 subunit interface [polypeptide binding]; other site 323848001505 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 323848001506 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323848001507 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 323848001508 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 323848001509 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323848001510 ATP-grasp domain; Region: ATP-grasp_4; cl17255 323848001511 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 323848001512 IMP binding site; other site 323848001513 dimer interface [polypeptide binding]; other site 323848001514 interdomain contacts; other site 323848001515 partial ornithine binding site; other site 323848001516 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 323848001517 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 323848001518 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 323848001519 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 323848001520 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 323848001521 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 323848001522 S-adenosylmethionine binding site [chemical binding]; other site 323848001523 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 323848001524 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848001525 Walker A motif; other site 323848001526 ATP binding site [chemical binding]; other site 323848001527 Walker B motif; other site 323848001528 arginine finger; other site 323848001529 Peptidase family M41; Region: Peptidase_M41; pfam01434 323848001530 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 323848001531 dihydropteroate synthase; Region: DHPS; TIGR01496 323848001532 substrate binding pocket [chemical binding]; other site 323848001533 dimer interface [polypeptide binding]; other site 323848001534 inhibitor binding site; inhibition site 323848001535 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 323848001536 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 323848001537 active site 323848001538 substrate binding site [chemical binding]; other site 323848001539 metal binding site [ion binding]; metal-binding site 323848001540 phosphate binding protein; Region: ptsS_2; TIGR02136 323848001541 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 323848001542 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 323848001543 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 323848001544 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 323848001545 active site 323848001546 dimer interface [polypeptide binding]; other site 323848001547 motif 1; other site 323848001548 motif 2; other site 323848001549 motif 3; other site 323848001550 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 323848001551 anticodon binding site; other site 323848001552 translation initiation factor IF-3; Region: infC; TIGR00168 323848001553 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 323848001554 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 323848001555 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 323848001556 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 323848001557 23S rRNA binding site [nucleotide binding]; other site 323848001558 L21 binding site [polypeptide binding]; other site 323848001559 L13 binding site [polypeptide binding]; other site 323848001560 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 323848001561 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 323848001562 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 323848001563 dimer interface [polypeptide binding]; other site 323848001564 motif 1; other site 323848001565 active site 323848001566 motif 2; other site 323848001567 motif 3; other site 323848001568 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 323848001569 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 323848001570 putative tRNA-binding site [nucleotide binding]; other site 323848001571 B3/4 domain; Region: B3_4; pfam03483 323848001572 tRNA synthetase B5 domain; Region: B5; smart00874 323848001573 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 323848001574 dimer interface [polypeptide binding]; other site 323848001575 motif 1; other site 323848001576 motif 3; other site 323848001577 motif 2; other site 323848001578 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 323848001579 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 323848001580 IHF dimer interface [polypeptide binding]; other site 323848001581 IHF - DNA interface [nucleotide binding]; other site 323848001582 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 323848001583 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 323848001584 DNA binding residues [nucleotide binding] 323848001585 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 323848001586 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 323848001587 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 323848001588 S-adenosylmethionine binding site [chemical binding]; other site 323848001589 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 323848001590 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 323848001591 Peptidase family M23; Region: Peptidase_M23; pfam01551 323848001592 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 323848001593 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 323848001594 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323848001595 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 323848001596 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 323848001597 DNA binding residues [nucleotide binding] 323848001598 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 323848001599 heme-binding site [chemical binding]; other site 323848001600 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 323848001601 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 323848001602 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 323848001603 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 323848001604 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 323848001605 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 323848001606 active site 323848001607 HIGH motif; other site 323848001608 dimer interface [polypeptide binding]; other site 323848001609 KMSKS motif; other site 323848001610 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 323848001611 RNA binding surface [nucleotide binding]; other site 323848001612 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 323848001613 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 323848001614 Walker A/P-loop; other site 323848001615 ATP binding site [chemical binding]; other site 323848001616 Q-loop/lid; other site 323848001617 ABC transporter signature motif; other site 323848001618 Walker B; other site 323848001619 D-loop; other site 323848001620 H-loop/switch region; other site 323848001621 TOBE-like domain; Region: TOBE_3; pfam12857 323848001622 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323848001623 dimer interface [polypeptide binding]; other site 323848001624 conserved gate region; other site 323848001625 putative PBP binding loops; other site 323848001626 ABC-ATPase subunit interface; other site 323848001627 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 323848001628 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323848001629 dimer interface [polypeptide binding]; other site 323848001630 conserved gate region; other site 323848001631 putative PBP binding loops; other site 323848001632 ABC-ATPase subunit interface; other site 323848001633 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 323848001634 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 323848001635 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 323848001636 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 323848001637 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 323848001638 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 323848001639 Ligand Binding Site [chemical binding]; other site 323848001640 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 323848001641 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 323848001642 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 323848001643 protein binding site [polypeptide binding]; other site 323848001644 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 323848001645 protein binding site [polypeptide binding]; other site 323848001646 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 323848001647 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 323848001648 HIGH motif; other site 323848001649 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 323848001650 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323848001651 active site 323848001652 KMSKS motif; other site 323848001653 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 323848001654 tRNA binding surface [nucleotide binding]; other site 323848001655 Lipopolysaccharide-assembly; Region: LptE; cl01125 323848001656 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 323848001657 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 323848001658 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 323848001659 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 323848001660 putative catalytic cysteine [active] 323848001661 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 323848001662 E3 interaction surface; other site 323848001663 lipoyl attachment site [posttranslational modification]; other site 323848001664 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 323848001665 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 323848001666 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323848001667 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 323848001668 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 323848001669 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 323848001670 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 323848001671 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 323848001672 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323848001673 catalytic residue [active] 323848001674 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 323848001675 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 323848001676 S-adenosylmethionine binding site [chemical binding]; other site 323848001677 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 323848001678 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 323848001679 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 323848001680 SurA N-terminal domain; Region: SurA_N; pfam09312 323848001681 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 323848001682 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 323848001683 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 323848001684 Organic solvent tolerance protein; Region: OstA_C; pfam04453 323848001685 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 323848001686 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 323848001687 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323848001688 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323848001689 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 323848001690 choline dehydrogenase; Validated; Region: PRK02106 323848001691 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 323848001692 Cytochrome c; Region: Cytochrom_C; pfam00034 323848001693 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 323848001694 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 323848001695 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 323848001696 putative heme binding pocket [chemical binding]; other site 323848001697 Lipoxygenase; Region: Lipoxygenase; pfam00305 323848001698 Animal prostaglandin endoperoxide synthase and related bacterial proteins; Region: prostaglandin_endoperoxide_synthase; cd09816 323848001699 substrate binding site [chemical binding]; other site 323848001700 homodimer interface [polypeptide binding]; other site 323848001701 heme binding site [chemical binding]; other site 323848001702 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 323848001703 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 323848001704 active site 323848001705 catalytic triad [active] 323848001706 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 323848001707 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 323848001708 RNB domain; Region: RNB; pfam00773 323848001709 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 323848001710 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 323848001711 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 323848001712 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 323848001713 shikimate binding site; other site 323848001714 NAD(P) binding site [chemical binding]; other site 323848001715 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 323848001716 Transglycosylase; Region: Transgly; cl17702 323848001717 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 323848001718 MgtE intracellular N domain; Region: MgtE_N; smart00924 323848001719 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 323848001720 Divalent cation transporter; Region: MgtE; cl00786 323848001721 diaminopimelate decarboxylase; Region: lysA; TIGR01048 323848001722 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 323848001723 active site 323848001724 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323848001725 substrate binding site [chemical binding]; other site 323848001726 catalytic residues [active] 323848001727 dimer interface [polypeptide binding]; other site 323848001728 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323848001729 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 323848001730 active site 323848001731 phosphorylation site [posttranslational modification] 323848001732 intermolecular recognition site; other site 323848001733 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 323848001734 Response regulator receiver domain; Region: Response_reg; pfam00072 323848001735 HTH-like domain; Region: HTH_21; pfam13276 323848001736 Integrase core domain; Region: rve; pfam00665 323848001737 Integrase core domain; Region: rve_3; cl15866 323848001738 Transposase; Region: HTH_Tnp_1; pfam01527 323848001739 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 323848001740 Protein of unknown function DUF45; Region: DUF45; pfam01863 323848001741 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 323848001742 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 323848001743 putative acyl-acceptor binding pocket; other site 323848001744 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 323848001745 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 323848001746 active site 323848001747 motif I; other site 323848001748 motif II; other site 323848001749 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 323848001750 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 323848001751 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 323848001752 dimer interface [polypeptide binding]; other site 323848001753 motif 1; other site 323848001754 active site 323848001755 motif 2; other site 323848001756 motif 3; other site 323848001757 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 323848001758 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 323848001759 putative active site [active] 323848001760 catalytic triad [active] 323848001761 putative dimer interface [polypeptide binding]; other site 323848001762 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323848001763 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 323848001764 ATP binding site [chemical binding]; other site 323848001765 Mg2+ binding site [ion binding]; other site 323848001766 G-X-G motif; other site 323848001767 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 323848001768 Peptidase family M23; Region: Peptidase_M23; pfam01551 323848001769 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 323848001770 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 323848001771 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 323848001772 rod shape-determining protein MreC; Provisional; Region: PRK13922 323848001773 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 323848001774 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 323848001775 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 323848001776 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 323848001777 23S rRNA interface [nucleotide binding]; other site 323848001778 L3 interface [polypeptide binding]; other site 323848001779 Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to...; Region: PRK_like; cd02029 323848001780 active site 323848001781 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 323848001782 Part of AAA domain; Region: AAA_19; pfam13245 323848001783 Family description; Region: UvrD_C_2; pfam13538 323848001784 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 323848001785 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 323848001786 putative active site [active] 323848001787 putative substrate binding site [chemical binding]; other site 323848001788 ATP binding site [chemical binding]; other site 323848001789 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 323848001790 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 323848001791 DNA polymerase I; Provisional; Region: PRK05755 323848001792 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 323848001793 active site 323848001794 metal binding site 1 [ion binding]; metal-binding site 323848001795 putative 5' ssDNA interaction site; other site 323848001796 metal binding site 3; metal-binding site 323848001797 metal binding site 2 [ion binding]; metal-binding site 323848001798 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 323848001799 putative DNA binding site [nucleotide binding]; other site 323848001800 putative metal binding site [ion binding]; other site 323848001801 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 323848001802 active site 323848001803 catalytic site [active] 323848001804 substrate binding site [chemical binding]; other site 323848001805 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 323848001806 active site 323848001807 DNA binding site [nucleotide binding] 323848001808 catalytic site [active] 323848001809 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 323848001810 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 323848001811 RimM N-terminal domain; Region: RimM; pfam01782 323848001812 PRC-barrel domain; Region: PRC; pfam05239 323848001813 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 323848001814 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 323848001815 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 323848001816 Predicted metal-binding protein [General function prediction only]; Region: COG3019 323848001817 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 323848001818 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 323848001819 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 323848001820 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 323848001821 oligomer interface [polypeptide binding]; other site 323848001822 Predicted membrane protein [Function unknown]; Region: COG2119 323848001823 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 323848001824 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 323848001825 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 323848001826 YGGT family; Region: YGGT; pfam02325 323848001827 YGGT family; Region: YGGT; pfam02325 323848001828 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 323848001829 pyrroline-5-carboxylate reductase; Region: PLN02688 323848001830 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 323848001831 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 323848001832 DNA binding site [nucleotide binding] 323848001833 catalytic residue [active] 323848001834 H2TH interface [polypeptide binding]; other site 323848001835 putative catalytic residues [active] 323848001836 turnover-facilitating residue; other site 323848001837 intercalation triad [nucleotide binding]; other site 323848001838 8OG recognition residue [nucleotide binding]; other site 323848001839 putative reading head residues; other site 323848001840 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 323848001841 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 323848001842 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 323848001843 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 323848001844 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 323848001845 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 323848001846 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 323848001847 Walker A/P-loop; other site 323848001848 ATP binding site [chemical binding]; other site 323848001849 Q-loop/lid; other site 323848001850 ABC transporter signature motif; other site 323848001851 Walker B; other site 323848001852 D-loop; other site 323848001853 H-loop/switch region; other site 323848001854 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 323848001855 binding surface 323848001856 TPR motif; other site 323848001857 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 323848001858 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 323848001859 TPR motif; other site 323848001860 binding surface 323848001861 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 323848001862 binding surface 323848001863 TPR motif; other site 323848001864 TPR repeat; Region: TPR_11; pfam13414 323848001865 TPR repeat; Region: TPR_11; pfam13414 323848001866 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 323848001867 TPR motif; other site 323848001868 binding surface 323848001869 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 323848001870 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 323848001871 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 323848001872 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 323848001873 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 323848001874 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 323848001875 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 323848001876 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323848001877 active site 323848001878 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 323848001879 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 323848001880 5S rRNA interface [nucleotide binding]; other site 323848001881 CTC domain interface [polypeptide binding]; other site 323848001882 L16 interface [polypeptide binding]; other site 323848001883 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 323848001884 putative active site [active] 323848001885 catalytic residue [active] 323848001886 GTP-binding protein YchF; Reviewed; Region: PRK09601 323848001887 YchF GTPase; Region: YchF; cd01900 323848001888 G1 box; other site 323848001889 GTP/Mg2+ binding site [chemical binding]; other site 323848001890 Switch I region; other site 323848001891 G2 box; other site 323848001892 Switch II region; other site 323848001893 G3 box; other site 323848001894 G4 box; other site 323848001895 G5 box; other site 323848001896 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 323848001897 Integrase core domain; Region: rve_3; pfam13683 323848001898 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848001899 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848001900 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848001901 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 323848001902 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 323848001903 Uncharacterized conserved protein [Function unknown]; Region: COG2928 323848001904 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 323848001905 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 323848001906 dimer interface [polypeptide binding]; other site 323848001907 anticodon binding site; other site 323848001908 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 323848001909 homodimer interface [polypeptide binding]; other site 323848001910 motif 1; other site 323848001911 active site 323848001912 motif 2; other site 323848001913 GAD domain; Region: GAD; pfam02938 323848001914 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 323848001915 motif 3; other site 323848001916 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_7; cd04664 323848001917 nudix motif; other site 323848001918 quinolinate synthetase; Provisional; Region: PRK09375 323848001919 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 323848001920 putative catalytic site [active] 323848001921 putative metal binding site [ion binding]; other site 323848001922 putative phosphate binding site [ion binding]; other site 323848001923 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 323848001924 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 323848001925 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 323848001926 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 323848001927 motif II; other site 323848001928 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 323848001929 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 323848001930 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 323848001931 ATP-grasp domain; Region: ATP-grasp; pfam02222 323848001932 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 323848001933 active site 323848001934 ATP binding site [chemical binding]; other site 323848001935 substrate binding site [chemical binding]; other site 323848001936 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 323848001937 EVE domain; Region: EVE; cl00728 323848001938 Animal prostaglandin endoperoxide synthase and related bacterial proteins; Region: prostaglandin_endoperoxide_synthase; cd09816 323848001939 substrate binding site [chemical binding]; other site 323848001940 homodimer interface [polypeptide binding]; other site 323848001941 heme binding site [chemical binding]; other site 323848001942 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 323848001943 nucleophilic elbow; other site 323848001944 catalytic triad; other site 323848001945 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 323848001946 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 323848001947 putative active site [active] 323848001948 putative metal binding site [ion binding]; other site 323848001949 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 323848001950 putative active site [active] 323848001951 putative catalytic site [active] 323848001952 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848001953 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848001954 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848001955 Amidohydrolase; Region: Amidohydro_2; pfam04909 323848001956 Cell division protein ZapA; Region: ZapA; pfam05164 323848001957 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 323848001958 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 323848001959 N-terminal plug; other site 323848001960 ligand-binding site [chemical binding]; other site 323848001961 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 323848001962 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323848001963 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323848001964 Walker A/P-loop; other site 323848001965 ATP binding site [chemical binding]; other site 323848001966 Q-loop/lid; other site 323848001967 ABC transporter signature motif; other site 323848001968 Walker B; other site 323848001969 D-loop; other site 323848001970 H-loop/switch region; other site 323848001971 PAS fold; Region: PAS_7; pfam12860 323848001972 PAS domain S-box; Region: sensory_box; TIGR00229 323848001973 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 323848001974 putative active site [active] 323848001975 heme pocket [chemical binding]; other site 323848001976 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323848001977 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323848001978 metal binding site [ion binding]; metal-binding site 323848001979 active site 323848001980 I-site; other site 323848001981 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 323848001982 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 323848001983 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 323848001984 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 323848001985 NAD(P) binding site [chemical binding]; other site 323848001986 homodimer interface [polypeptide binding]; other site 323848001987 substrate binding site [chemical binding]; other site 323848001988 active site 323848001989 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 323848001990 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 323848001991 Mg++ binding site [ion binding]; other site 323848001992 putative catalytic motif [active] 323848001993 putative substrate binding site [chemical binding]; other site 323848001994 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 323848001995 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 323848001996 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 323848001997 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 323848001998 N-terminal plug; other site 323848001999 ligand-binding site [chemical binding]; other site 323848002000 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 323848002001 phosphoserine phosphatase SerB; Region: serB; TIGR00338 323848002002 Chorismate lyase; Region: Chor_lyase; cl01230 323848002003 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 323848002004 motif II; other site 323848002005 Bacterial SH3 domain; Region: SH3_3; pfam08239 323848002006 Cache domain; Region: Cache_1; pfam02743 323848002007 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 323848002008 dimerization interface [polypeptide binding]; other site 323848002009 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323848002010 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323848002011 metal binding site [ion binding]; metal-binding site 323848002012 active site 323848002013 I-site; other site 323848002014 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 323848002015 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 323848002016 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 323848002017 ATP binding site [chemical binding]; other site 323848002018 putative Mg++ binding site [ion binding]; other site 323848002019 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 323848002020 nucleotide binding region [chemical binding]; other site 323848002021 ATP-binding site [chemical binding]; other site 323848002022 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 323848002023 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 323848002024 DHH family; Region: DHH; pfam01368 323848002025 DHHA1 domain; Region: DHHA1; pfam02272 323848002026 Protein of unknown function (DUF1207); Region: DUF1207; pfam06727 323848002027 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 323848002028 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 323848002029 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 323848002030 Walker A/P-loop; other site 323848002031 ATP binding site [chemical binding]; other site 323848002032 Q-loop/lid; other site 323848002033 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 323848002034 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 323848002035 ABC transporter signature motif; other site 323848002036 Walker B; other site 323848002037 D-loop; other site 323848002038 H-loop/switch region; other site 323848002039 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 323848002040 FtsZ protein binding site [polypeptide binding]; other site 323848002041 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 323848002042 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 323848002043 nucleotide binding pocket [chemical binding]; other site 323848002044 K-X-D-G motif; other site 323848002045 catalytic site [active] 323848002046 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 323848002047 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 323848002048 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 323848002049 Dimer interface [polypeptide binding]; other site 323848002050 BRCT sequence motif; other site 323848002051 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 323848002052 active site 323848002053 tetramer interface; other site 323848002054 hypoxanthine-guanine phosphoribosyltransferase; Provisional; Region: PRK09162 323848002055 5'-methylthioadenosine phosphorylase; Validated; Region: PRK09136 323848002056 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 323848002057 active site 323848002058 catalytic residues [active] 323848002059 metal binding site [ion binding]; metal-binding site 323848002060 shikimate kinase; Reviewed; Region: aroK; PRK00131 323848002061 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 323848002062 ADP binding site [chemical binding]; other site 323848002063 magnesium binding site [ion binding]; other site 323848002064 putative shikimate binding site; other site 323848002065 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 323848002066 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 323848002067 rRNA interaction site [nucleotide binding]; other site 323848002068 S8 interaction site; other site 323848002069 putative laminin-1 binding site; other site 323848002070 elongation factor Ts; Provisional; Region: tsf; PRK09377 323848002071 UBA/TS-N domain; Region: UBA; pfam00627 323848002072 Elongation factor TS; Region: EF_TS; pfam00889 323848002073 Elongation factor TS; Region: EF_TS; pfam00889 323848002074 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 323848002075 putative nucleotide binding site [chemical binding]; other site 323848002076 uridine monophosphate binding site [chemical binding]; other site 323848002077 homohexameric interface [polypeptide binding]; other site 323848002078 ribosome recycling factor; Reviewed; Region: frr; PRK00083 323848002079 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 323848002080 hinge region; other site 323848002081 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 323848002082 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 323848002083 catalytic residue [active] 323848002084 putative FPP diphosphate binding site; other site 323848002085 putative FPP binding hydrophobic cleft; other site 323848002086 dimer interface [polypeptide binding]; other site 323848002087 putative IPP diphosphate binding site; other site 323848002088 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 323848002089 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 323848002090 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 323848002091 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 323848002092 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 323848002093 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 323848002094 zinc metallopeptidase RseP; Provisional; Region: PRK10779 323848002095 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 323848002096 active site 323848002097 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 323848002098 protein binding site [polypeptide binding]; other site 323848002099 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 323848002100 protein binding site [polypeptide binding]; other site 323848002101 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 323848002102 putative substrate binding region [chemical binding]; other site 323848002103 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 323848002104 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323848002105 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323848002106 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323848002107 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323848002108 Surface antigen; Region: Bac_surface_Ag; pfam01103 323848002109 periplasmic chaperone; Provisional; Region: PRK10780 323848002110 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 323848002111 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 323848002112 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 323848002113 RNA/DNA hybrid binding site [nucleotide binding]; other site 323848002114 active site 323848002115 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 323848002116 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 323848002117 MutS domain I; Region: MutS_I; pfam01624 323848002118 MutS domain II; Region: MutS_II; pfam05188 323848002119 MutS domain III; Region: MutS_III; pfam05192 323848002120 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 323848002121 Walker A/P-loop; other site 323848002122 ATP binding site [chemical binding]; other site 323848002123 Q-loop/lid; other site 323848002124 ABC transporter signature motif; other site 323848002125 Walker B; other site 323848002126 D-loop; other site 323848002127 H-loop/switch region; other site 323848002128 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 323848002129 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 323848002130 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 323848002131 active site 323848002132 dimerization interface [polypeptide binding]; other site 323848002133 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 323848002134 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 323848002135 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 323848002136 Rrf2 family protein; Region: rrf2_super; TIGR00738 323848002137 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 323848002138 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 323848002139 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323848002140 catalytic residue [active] 323848002141 VacJ like lipoprotein; Region: VacJ; cl01073 323848002142 Predicted membrane protein [Function unknown]; Region: COG3671 323848002143 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 323848002144 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 323848002145 ligand binding site [chemical binding]; other site 323848002146 flexible hinge region; other site 323848002147 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 323848002148 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 323848002149 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 323848002150 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 323848002151 active site 323848002152 tetramer interface; other site 323848002153 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 323848002154 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323848002155 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 323848002156 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323848002157 Walker A/P-loop; other site 323848002158 ATP binding site [chemical binding]; other site 323848002159 Q-loop/lid; other site 323848002160 ABC transporter signature motif; other site 323848002161 Walker B; other site 323848002162 D-loop; other site 323848002163 H-loop/switch region; other site 323848002164 CbbX; Provisional; Region: cbbX; CHL00181 323848002165 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848002166 Walker A motif; other site 323848002167 ATP binding site [chemical binding]; other site 323848002168 Walker B motif; other site 323848002169 arginine finger; other site 323848002170 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 323848002171 multimerization interface [polypeptide binding]; other site 323848002172 ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit; Region: rbcL; CHL00040 323848002173 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 323848002174 homodimer interface [polypeptide binding]; other site 323848002175 active site 323848002176 heterodimer interface [polypeptide binding]; other site 323848002177 catalytic residue [active] 323848002178 metal binding site [ion binding]; metal-binding site 323848002179 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323848002180 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323848002181 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 323848002182 putative dimerization interface [polypeptide binding]; other site 323848002183 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 323848002184 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323848002185 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323848002186 HlyD family secretion protein; Region: HlyD_3; pfam13437 323848002187 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 323848002188 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 323848002189 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 323848002190 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323848002191 HlyD family secretion protein; Region: HlyD_3; pfam13437 323848002192 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 323848002193 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323848002194 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 323848002195 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 323848002196 Rrf2 family protein; Region: rrf2_super; TIGR00738 323848002197 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 323848002198 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 323848002199 putative ABC transporter; Region: ycf24; CHL00085 323848002200 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 323848002201 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 323848002202 Walker A/P-loop; other site 323848002203 ATP binding site [chemical binding]; other site 323848002204 Q-loop/lid; other site 323848002205 ABC transporter signature motif; other site 323848002206 Walker B; other site 323848002207 D-loop; other site 323848002208 H-loop/switch region; other site 323848002209 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 323848002210 FeS assembly protein SufD; Region: sufD; TIGR01981 323848002211 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 323848002212 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 323848002213 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323848002214 catalytic residue [active] 323848002215 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 323848002216 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 323848002217 trimerization site [polypeptide binding]; other site 323848002218 active site 323848002219 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 323848002220 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 323848002221 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 323848002222 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 323848002223 active site 323848002224 dimer interface [polypeptide binding]; other site 323848002225 metal binding site [ion binding]; metal-binding site 323848002226 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 323848002227 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323848002228 Zn2+ binding site [ion binding]; other site 323848002229 Mg2+ binding site [ion binding]; other site 323848002230 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 323848002231 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 323848002232 substrate binding site [chemical binding]; other site 323848002233 active site 323848002234 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323848002235 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 323848002236 active site 323848002237 phosphorylation site [posttranslational modification] 323848002238 intermolecular recognition site; other site 323848002239 dimerization interface [polypeptide binding]; other site 323848002240 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 323848002241 DNA binding site [nucleotide binding] 323848002242 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323848002243 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848002244 dimer interface [polypeptide binding]; other site 323848002245 phosphorylation site [posttranslational modification] 323848002246 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 323848002247 ATP binding site [chemical binding]; other site 323848002248 Mg2+ binding site [ion binding]; other site 323848002249 G-X-G motif; other site 323848002250 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 323848002251 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 323848002252 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 323848002253 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323848002254 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 323848002255 high affinity sulphate transporter 1; Region: sulP; TIGR00815 323848002256 Sulfate transporter family; Region: Sulfate_transp; pfam00916 323848002257 GTPase RsgA; Reviewed; Region: PRK00098 323848002258 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 323848002259 RNA binding site [nucleotide binding]; other site 323848002260 homodimer interface [polypeptide binding]; other site 323848002261 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 323848002262 GTPase/Zn-binding domain interface [polypeptide binding]; other site 323848002263 GTP/Mg2+ binding site [chemical binding]; other site 323848002264 G4 box; other site 323848002265 G5 box; other site 323848002266 G1 box; other site 323848002267 Switch I region; other site 323848002268 G2 box; other site 323848002269 G3 box; other site 323848002270 Switch II region; other site 323848002271 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 323848002272 aromatic arch; other site 323848002273 DCoH dimer interaction site [polypeptide binding]; other site 323848002274 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 323848002275 DCoH tetramer interaction site [polypeptide binding]; other site 323848002276 substrate binding site [chemical binding]; other site 323848002277 Peptidase family M48; Region: Peptidase_M48; pfam01435 323848002278 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 323848002279 catalytic site [active] 323848002280 putative active site [active] 323848002281 putative substrate binding site [chemical binding]; other site 323848002282 dimer interface [polypeptide binding]; other site 323848002283 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 323848002284 putative homodimer interface [polypeptide binding]; other site 323848002285 putative active site pocket [active] 323848002286 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 323848002287 glycogen synthase; Provisional; Region: glgA; PRK00654 323848002288 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 323848002289 ADP-binding pocket [chemical binding]; other site 323848002290 homodimer interface [polypeptide binding]; other site 323848002291 glycogen branching enzyme; Provisional; Region: PRK05402 323848002292 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 323848002293 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 323848002294 active site 323848002295 catalytic site [active] 323848002296 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 323848002297 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 323848002298 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 323848002299 ligand binding site; other site 323848002300 oligomer interface; other site 323848002301 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 323848002302 dimer interface [polypeptide binding]; other site 323848002303 N-terminal domain interface [polypeptide binding]; other site 323848002304 sulfate 1 binding site; other site 323848002305 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 323848002306 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 323848002307 putative active site [active] 323848002308 catalytic site [active] 323848002309 Ferredoxin [Energy production and conversion]; Region: COG1146 323848002310 4Fe-4S binding domain; Region: Fer4; cl02805 323848002311 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 323848002312 probable DNA repair protein; Region: TIGR03623 323848002313 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 323848002314 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 323848002315 Part of AAA domain; Region: AAA_19; pfam13245 323848002316 Family description; Region: UvrD_C_2; pfam13538 323848002317 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 323848002318 Transglycosylase SLT domain; Region: SLT_2; pfam13406 323848002319 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 323848002320 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323848002321 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 323848002322 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 323848002323 Ligand binding site; other site 323848002324 Putative Catalytic site; other site 323848002325 DXD motif; other site 323848002326 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 323848002327 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323848002328 Coenzyme A binding pocket [chemical binding]; other site 323848002329 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 323848002330 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 323848002331 ATP binding site [chemical binding]; other site 323848002332 Mg2+ binding site [ion binding]; other site 323848002333 G-X-G motif; other site 323848002334 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 323848002335 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 323848002336 active site 323848002337 phosphorylation site [posttranslational modification] 323848002338 intermolecular recognition site; other site 323848002339 dimerization interface [polypeptide binding]; other site 323848002340 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 323848002341 DNA binding residues [nucleotide binding] 323848002342 dimerization interface [polypeptide binding]; other site 323848002343 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 323848002344 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 323848002345 Walker A/P-loop; other site 323848002346 ATP binding site [chemical binding]; other site 323848002347 Q-loop/lid; other site 323848002348 ABC transporter signature motif; other site 323848002349 Walker B; other site 323848002350 D-loop; other site 323848002351 H-loop/switch region; other site 323848002352 TOBE domain; Region: TOBE_2; pfam08402 323848002353 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 323848002354 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323848002355 dimer interface [polypeptide binding]; other site 323848002356 conserved gate region; other site 323848002357 putative PBP binding loops; other site 323848002358 ABC-ATPase subunit interface; other site 323848002359 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323848002360 dimer interface [polypeptide binding]; other site 323848002361 conserved gate region; other site 323848002362 putative PBP binding loops; other site 323848002363 ABC-ATPase subunit interface; other site 323848002364 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 323848002365 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 323848002366 hypothetical protein; Provisional; Region: PRK02877 323848002367 C factor cell-cell signaling protein; Provisional; Region: PRK09009 323848002368 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 323848002369 NADP binding site [chemical binding]; other site 323848002370 homodimer interface [polypeptide binding]; other site 323848002371 active site 323848002372 short chain dehydrogenase; Validated; Region: PRK06182 323848002373 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 323848002374 NADP binding site [chemical binding]; other site 323848002375 active site 323848002376 steroid binding site; other site 323848002377 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 323848002378 Domain of unknown function DUF20; Region: UPF0118; pfam01594 323848002379 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 323848002380 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 323848002381 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 323848002382 6-phosphofructokinase; Provisional; Region: PRK14072 323848002383 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 323848002384 active site 323848002385 ADP/pyrophosphate binding site [chemical binding]; other site 323848002386 dimerization interface [polypeptide binding]; other site 323848002387 allosteric effector site; other site 323848002388 fructose-1,6-bisphosphate binding site; other site 323848002389 adenylate kinase; Reviewed; Region: adk; PRK00279 323848002390 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 323848002391 AMP-binding site [chemical binding]; other site 323848002392 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 323848002393 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 323848002394 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 323848002395 HIGH motif; other site 323848002396 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 323848002397 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 323848002398 active site 323848002399 KMSKS motif; other site 323848002400 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 323848002401 tRNA binding surface [nucleotide binding]; other site 323848002402 anticodon binding site; other site 323848002403 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 323848002404 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848002405 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848002406 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848002407 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848002408 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 323848002409 multifunctional aminopeptidase A; Provisional; Region: PRK00913 323848002410 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 323848002411 interface (dimer of trimers) [polypeptide binding]; other site 323848002412 Substrate-binding/catalytic site; other site 323848002413 Zn-binding sites [ion binding]; other site 323848002414 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 323848002415 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 323848002416 DNA binding site [nucleotide binding] 323848002417 active site 323848002418 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 323848002419 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 323848002420 active site 323848002421 Int/Topo IB signature motif; other site 323848002422 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 323848002423 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323848002424 ligand binding site [chemical binding]; other site 323848002425 Protein of unknown function (DUF454); Region: DUF454; cl01063 323848002426 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 323848002427 elongation factor Tu; Reviewed; Region: PRK00049 323848002428 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 323848002429 G1 box; other site 323848002430 GEF interaction site [polypeptide binding]; other site 323848002431 GTP/Mg2+ binding site [chemical binding]; other site 323848002432 Switch I region; other site 323848002433 G2 box; other site 323848002434 G3 box; other site 323848002435 Switch II region; other site 323848002436 G4 box; other site 323848002437 G5 box; other site 323848002438 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 323848002439 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 323848002440 Antibiotic Binding Site [chemical binding]; other site 323848002441 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 323848002442 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 323848002443 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 323848002444 putative homodimer interface [polypeptide binding]; other site 323848002445 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 323848002446 heterodimer interface [polypeptide binding]; other site 323848002447 homodimer interface [polypeptide binding]; other site 323848002448 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 323848002449 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 323848002450 23S rRNA interface [nucleotide binding]; other site 323848002451 L7/L12 interface [polypeptide binding]; other site 323848002452 putative thiostrepton binding site; other site 323848002453 L25 interface [polypeptide binding]; other site 323848002454 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 323848002455 mRNA/rRNA interface [nucleotide binding]; other site 323848002456 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 323848002457 23S rRNA interface [nucleotide binding]; other site 323848002458 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 323848002459 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 323848002460 peripheral dimer interface [polypeptide binding]; other site 323848002461 core dimer interface [polypeptide binding]; other site 323848002462 L10 interface [polypeptide binding]; other site 323848002463 L11 interface [polypeptide binding]; other site 323848002464 putative EF-Tu interaction site [polypeptide binding]; other site 323848002465 putative EF-G interaction site [polypeptide binding]; other site 323848002466 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 323848002467 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 323848002468 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 323848002469 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 323848002470 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 323848002471 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 323848002472 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 323848002473 RPB3 interaction site [polypeptide binding]; other site 323848002474 RPB1 interaction site [polypeptide binding]; other site 323848002475 RPB11 interaction site [polypeptide binding]; other site 323848002476 RPB10 interaction site [polypeptide binding]; other site 323848002477 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 323848002478 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 323848002479 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 323848002480 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 323848002481 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 323848002482 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 323848002483 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 323848002484 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 323848002485 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 323848002486 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 323848002487 DNA binding site [nucleotide binding] 323848002488 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 323848002489 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 323848002490 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 323848002491 inhibitor-cofactor binding pocket; inhibition site 323848002492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848002493 catalytic residue [active] 323848002494 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 323848002495 S17 interaction site [polypeptide binding]; other site 323848002496 S8 interaction site; other site 323848002497 16S rRNA interaction site [nucleotide binding]; other site 323848002498 streptomycin interaction site [chemical binding]; other site 323848002499 23S rRNA interaction site [nucleotide binding]; other site 323848002500 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 323848002501 30S ribosomal protein S7; Validated; Region: PRK05302 323848002502 elongation factor G; Reviewed; Region: PRK00007 323848002503 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 323848002504 G1 box; other site 323848002505 putative GEF interaction site [polypeptide binding]; other site 323848002506 GTP/Mg2+ binding site [chemical binding]; other site 323848002507 Switch I region; other site 323848002508 G2 box; other site 323848002509 G3 box; other site 323848002510 Switch II region; other site 323848002511 G4 box; other site 323848002512 G5 box; other site 323848002513 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 323848002514 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 323848002515 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 323848002516 elongation factor Tu; Reviewed; Region: PRK00049 323848002517 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 323848002518 G1 box; other site 323848002519 GEF interaction site [polypeptide binding]; other site 323848002520 GTP/Mg2+ binding site [chemical binding]; other site 323848002521 Switch I region; other site 323848002522 G2 box; other site 323848002523 G3 box; other site 323848002524 Switch II region; other site 323848002525 G4 box; other site 323848002526 G5 box; other site 323848002527 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 323848002528 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 323848002529 Antibiotic Binding Site [chemical binding]; other site 323848002530 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 323848002531 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 323848002532 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 323848002533 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 323848002534 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 323848002535 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 323848002536 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 323848002537 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 323848002538 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 323848002539 putative translocon binding site; other site 323848002540 protein-rRNA interface [nucleotide binding]; other site 323848002541 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 323848002542 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 323848002543 G-X-X-G motif; other site 323848002544 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 323848002545 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 323848002546 23S rRNA interface [nucleotide binding]; other site 323848002547 5S rRNA interface [nucleotide binding]; other site 323848002548 putative antibiotic binding site [chemical binding]; other site 323848002549 L25 interface [polypeptide binding]; other site 323848002550 L27 interface [polypeptide binding]; other site 323848002551 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 323848002552 23S rRNA interface [nucleotide binding]; other site 323848002553 putative translocon interaction site; other site 323848002554 signal recognition particle (SRP54) interaction site; other site 323848002555 L23 interface [polypeptide binding]; other site 323848002556 trigger factor interaction site; other site 323848002557 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 323848002558 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 323848002559 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 323848002560 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 323848002561 RNA binding site [nucleotide binding]; other site 323848002562 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 323848002563 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 323848002564 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 323848002565 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 323848002566 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 323848002567 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 323848002568 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 323848002569 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 323848002570 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 323848002571 5S rRNA interface [nucleotide binding]; other site 323848002572 23S rRNA interface [nucleotide binding]; other site 323848002573 L5 interface [polypeptide binding]; other site 323848002574 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 323848002575 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 323848002576 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 323848002577 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 323848002578 23S rRNA binding site [nucleotide binding]; other site 323848002579 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 323848002580 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 323848002581 SecY translocase; Region: SecY; pfam00344 323848002582 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 323848002583 rRNA binding site [nucleotide binding]; other site 323848002584 predicted 30S ribosome binding site; other site 323848002585 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 323848002586 30S ribosomal protein S13; Region: bact_S13; TIGR03631 323848002587 30S ribosomal protein S11; Validated; Region: PRK05309 323848002588 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 323848002589 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 323848002590 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 323848002591 RNA binding surface [nucleotide binding]; other site 323848002592 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 323848002593 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 323848002594 alphaNTD homodimer interface [polypeptide binding]; other site 323848002595 alphaNTD - beta interaction site [polypeptide binding]; other site 323848002596 alphaNTD - beta' interaction site [polypeptide binding]; other site 323848002597 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 323848002598 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 323848002599 Protein of unknown function (DUF2806); Region: DUF2806; cl12560 323848002600 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 323848002601 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323848002602 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 323848002603 active site 323848002604 HIGH motif; other site 323848002605 nucleotide binding site [chemical binding]; other site 323848002606 KMSKS motif; other site 323848002607 methane monooxygenase/ammonia monooxygenase, subunit C; Region: CH4_NH3mon_ox_C; TIGR03078 323848002608 methane monooxygenase/ammonia monooxygenase, subunit A; Region: CH4_NH3mon_ox_A; TIGR03080 323848002609 methane monooxygenase/ammonia monooxygenase, subunit B; Region: CH4_NH3mon_ox_B; TIGR03079 323848002610 Monooxygenase subunit B protein; Region: Monooxygenase_B; pfam04744 323848002611 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 323848002612 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 323848002613 DNA-binding site [nucleotide binding]; DNA binding site 323848002614 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 323848002615 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848002616 homodimer interface [polypeptide binding]; other site 323848002617 catalytic residue [active] 323848002618 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 323848002619 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 323848002620 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 323848002621 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 323848002622 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 323848002623 Uncharacterized conserved protein [Function unknown]; Region: COG0327 323848002624 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 323848002625 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 323848002626 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 323848002627 protein binding site [polypeptide binding]; other site 323848002628 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 323848002629 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 323848002630 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 323848002631 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 323848002632 nucleotide binding site/active site [active] 323848002633 HIT family signature motif; other site 323848002634 catalytic residue [active] 323848002635 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 323848002636 metal binding site [ion binding]; metal-binding site 323848002637 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 323848002638 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 323848002639 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 323848002640 substrate binding site [chemical binding]; other site 323848002641 glutamase interaction surface [polypeptide binding]; other site 323848002642 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 323848002643 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 323848002644 catalytic residues [active] 323848002645 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 323848002646 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 323848002647 putative active site [active] 323848002648 oxyanion strand; other site 323848002649 catalytic triad [active] 323848002650 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 323848002651 putative active site pocket [active] 323848002652 4-fold oligomerization interface [polypeptide binding]; other site 323848002653 metal binding residues [ion binding]; metal-binding site 323848002654 3-fold/trimer interface [polypeptide binding]; other site 323848002655 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 323848002656 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 323848002657 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848002658 homodimer interface [polypeptide binding]; other site 323848002659 catalytic residue [active] 323848002660 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 323848002661 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 323848002662 NAD binding site [chemical binding]; other site 323848002663 dimerization interface [polypeptide binding]; other site 323848002664 product binding site; other site 323848002665 substrate binding site [chemical binding]; other site 323848002666 zinc binding site [ion binding]; other site 323848002667 catalytic residues [active] 323848002668 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 323848002669 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 323848002670 Response regulator receiver domain; Region: Response_reg; pfam00072 323848002671 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 323848002672 active site 323848002673 phosphorylation site [posttranslational modification] 323848002674 intermolecular recognition site; other site 323848002675 dimerization interface [polypeptide binding]; other site 323848002676 CHORD; Region: CHORD; pfam04968 323848002677 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323848002678 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 323848002679 phosphorylation site [posttranslational modification] 323848002680 intermolecular recognition site; other site 323848002681 PAS domain S-box; Region: sensory_box; TIGR00229 323848002682 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 323848002683 putative active site [active] 323848002684 heme pocket [chemical binding]; other site 323848002685 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323848002686 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323848002687 metal binding site [ion binding]; metal-binding site 323848002688 active site 323848002689 I-site; other site 323848002690 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 323848002691 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 323848002692 Response regulator receiver domain; Region: Response_reg; pfam00072 323848002693 active site 323848002694 phosphorylation site [posttranslational modification] 323848002695 intermolecular recognition site; other site 323848002696 dimerization interface [polypeptide binding]; other site 323848002697 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848002698 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848002699 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 323848002700 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 323848002701 ligand binding site [chemical binding]; other site 323848002702 flexible hinge region; other site 323848002703 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 323848002704 putative switch regulator; other site 323848002705 non-specific DNA interactions [nucleotide binding]; other site 323848002706 DNA binding site [nucleotide binding] 323848002707 sequence specific DNA binding site [nucleotide binding]; other site 323848002708 putative cAMP binding site [chemical binding]; other site 323848002709 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323848002710 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848002711 dimer interface [polypeptide binding]; other site 323848002712 phosphorylation site [posttranslational modification] 323848002713 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 323848002714 ATP binding site [chemical binding]; other site 323848002715 Mg2+ binding site [ion binding]; other site 323848002716 G-X-G motif; other site 323848002717 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 323848002718 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848002719 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848002720 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848002721 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848002722 Haemolysin-III related; Region: HlyIII; cl03831 323848002723 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 323848002724 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 323848002725 DNA-binding site [nucleotide binding]; DNA binding site 323848002726 RNA-binding motif; other site 323848002727 Predicted transcriptional regulator [Transcription]; Region: COG2944 323848002728 cyanobactin maturation protease, PatA/PatG family; Region: protease_PatA; TIGR03895 323848002729 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 323848002730 active site 323848002731 catalytic residues [active] 323848002732 Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the...; Region: KAZAL_FS; cd00104 323848002733 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 323848002734 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 323848002735 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323848002736 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323848002737 HlyD family secretion protein; Region: HlyD_3; pfam13437 323848002738 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 323848002739 Protein export membrane protein; Region: SecD_SecF; cl14618 323848002740 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 323848002741 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 323848002742 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 323848002743 metal binding site [ion binding]; metal-binding site 323848002744 putative dimer interface [polypeptide binding]; other site 323848002745 Predicted membrane protein [Function unknown]; Region: COG2860 323848002746 UPF0126 domain; Region: UPF0126; pfam03458 323848002747 UPF0126 domain; Region: UPF0126; pfam03458 323848002748 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 323848002749 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 323848002750 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323848002751 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 323848002752 2-oxoglutarate dehydrogenase complex dihydrolipoamide succinyltransferase (E2 component); Region: sucB; TIGR01347 323848002753 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 323848002754 E3 interaction surface; other site 323848002755 lipoyl attachment site [posttranslational modification]; other site 323848002756 e3 binding domain; Region: E3_binding; pfam02817 323848002757 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 323848002758 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 323848002759 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 323848002760 TPP-binding site [chemical binding]; other site 323848002761 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 323848002762 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 323848002763 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 323848002764 dimer interface [polypeptide binding]; other site 323848002765 active site 323848002766 citrylCoA binding site [chemical binding]; other site 323848002767 NADH binding [chemical binding]; other site 323848002768 cationic pore residues; other site 323848002769 oxalacetate/citrate binding site [chemical binding]; other site 323848002770 coenzyme A binding site [chemical binding]; other site 323848002771 catalytic triad [active] 323848002772 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 323848002773 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 323848002774 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 323848002775 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 323848002776 L-aspartate oxidase; Provisional; Region: PRK06175 323848002777 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 323848002778 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 323848002779 SdhC subunit interface [polypeptide binding]; other site 323848002780 proximal heme binding site [chemical binding]; other site 323848002781 cardiolipin binding site; other site 323848002782 Iron-sulfur protein interface; other site 323848002783 proximal quinone binding site [chemical binding]; other site 323848002784 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 323848002785 Iron-sulfur protein interface; other site 323848002786 proximal quinone binding site [chemical binding]; other site 323848002787 SdhD (CybS) interface [polypeptide binding]; other site 323848002788 proximal heme binding site [chemical binding]; other site 323848002789 malate dehydrogenase; Provisional; Region: PRK05442 323848002790 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 323848002791 NAD(P) binding site [chemical binding]; other site 323848002792 dimer interface [polypeptide binding]; other site 323848002793 malate binding site [chemical binding]; other site 323848002794 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 323848002795 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 323848002796 tetramer interface [polypeptide binding]; other site 323848002797 active site 323848002798 Mg2+/Mn2+ binding site [ion binding]; other site 323848002799 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 323848002800 methylcitrate synthase; Provisional; Region: PRK12351 323848002801 oxalacetate binding site [chemical binding]; other site 323848002802 citrylCoA binding site [chemical binding]; other site 323848002803 coenzyme A binding site [chemical binding]; other site 323848002804 catalytic triad [active] 323848002805 SIR2-like domain; Region: SIR2_2; pfam13289 323848002806 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 323848002807 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 323848002808 2-methylcitrate dehydratase; Region: prpD; TIGR02330 323848002809 RecB family nuclease, putative, TM0106 family; Region: TIGR03491 323848002810 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 323848002811 PGAP1-like protein; Region: PGAP1; pfam07819 323848002812 short chain dehydrogenase; Validated; Region: PRK08264 323848002813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323848002814 NAD(P) binding site [chemical binding]; other site 323848002815 active site 323848002816 aconitate hydratase 1; Region: aconitase_1; TIGR01341 323848002817 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 323848002818 substrate binding site [chemical binding]; other site 323848002819 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 323848002820 ligand binding site [chemical binding]; other site 323848002821 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 323848002822 substrate binding site [chemical binding]; other site 323848002823 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 323848002824 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 323848002825 pantoate--beta-alanine ligase; Region: panC; TIGR00018 323848002826 Pantoate-beta-alanine ligase; Region: PanC; cd00560 323848002827 active site 323848002828 ATP-binding site [chemical binding]; other site 323848002829 pantoate-binding site; other site 323848002830 HXXH motif; other site 323848002831 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 323848002832 active site 323848002833 oligomerization interface [polypeptide binding]; other site 323848002834 metal binding site [ion binding]; metal-binding site 323848002835 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 323848002836 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 323848002837 Substrate-binding site [chemical binding]; other site 323848002838 Substrate specificity [chemical binding]; other site 323848002839 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 323848002840 catalytic center binding site [active] 323848002841 ATP binding site [chemical binding]; other site 323848002842 poly(A) polymerase; Region: pcnB; TIGR01942 323848002843 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 323848002844 active site 323848002845 NTP binding site [chemical binding]; other site 323848002846 metal binding triad [ion binding]; metal-binding site 323848002847 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 323848002848 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 323848002849 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 323848002850 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 323848002851 Walker A/P-loop; other site 323848002852 ATP binding site [chemical binding]; other site 323848002853 Q-loop/lid; other site 323848002854 ABC transporter signature motif; other site 323848002855 Walker B; other site 323848002856 D-loop; other site 323848002857 H-loop/switch region; other site 323848002858 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 323848002859 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 323848002860 generic binding surface II; other site 323848002861 ssDNA binding site; other site 323848002862 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 323848002863 ATP binding site [chemical binding]; other site 323848002864 putative Mg++ binding site [ion binding]; other site 323848002865 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 323848002866 nucleotide binding region [chemical binding]; other site 323848002867 ATP-binding site [chemical binding]; other site 323848002868 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 323848002869 homotrimer interaction site [polypeptide binding]; other site 323848002870 putative active site [active] 323848002871 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 323848002872 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 323848002873 hinge; other site 323848002874 active site 323848002875 Uncharacterized conserved protein [Function unknown]; Region: COG1262 323848002876 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 323848002877 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 323848002878 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323848002879 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323848002880 ABC transporter; Region: ABC_tran_2; pfam12848 323848002881 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323848002882 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 323848002883 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 323848002884 C-terminal domain interface [polypeptide binding]; other site 323848002885 GSH binding site (G-site) [chemical binding]; other site 323848002886 dimer interface [polypeptide binding]; other site 323848002887 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 323848002888 N-terminal domain interface [polypeptide binding]; other site 323848002889 dimer interface [polypeptide binding]; other site 323848002890 substrate binding pocket (H-site) [chemical binding]; other site 323848002891 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 323848002892 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 323848002893 putative metal binding site [ion binding]; other site 323848002894 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 323848002895 HSP70 interaction site [polypeptide binding]; other site 323848002896 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 323848002897 FtsX-like permease family; Region: FtsX; pfam02687 323848002898 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323848002899 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 323848002900 FtsX-like permease family; Region: FtsX; pfam02687 323848002901 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323848002902 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 323848002903 Walker A/P-loop; other site 323848002904 ATP binding site [chemical binding]; other site 323848002905 Q-loop/lid; other site 323848002906 ABC transporter signature motif; other site 323848002907 Walker B; other site 323848002908 D-loop; other site 323848002909 H-loop/switch region; other site 323848002910 phosphate binding protein; Region: ptsS_2; TIGR02136 323848002911 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 323848002912 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 323848002913 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323848002914 active site 323848002915 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 323848002916 hypothetical protein; Provisional; Region: PRK08609 323848002917 active site 323848002918 primer binding site [nucleotide binding]; other site 323848002919 NTP binding site [chemical binding]; other site 323848002920 metal binding triad [ion binding]; metal-binding site 323848002921 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 323848002922 active site 323848002923 Archease protein family (MTH1598/TM1083); Region: Archease; pfam01951 323848002924 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 323848002925 hypothetical protein; Reviewed; Region: PRK09588 323848002926 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 323848002927 Ligand Binding Site [chemical binding]; other site 323848002928 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 323848002929 30S subunit binding site; other site 323848002930 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 323848002931 DNA-binding site [nucleotide binding]; DNA binding site 323848002932 RNA-binding motif; other site 323848002933 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 323848002934 Isochorismatase family; Region: Isochorismatase; pfam00857 323848002935 catalytic triad [active] 323848002936 metal binding site [ion binding]; metal-binding site 323848002937 conserved cis-peptide bond; other site 323848002938 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 323848002939 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 323848002940 active site 323848002941 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 323848002942 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 323848002943 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 323848002944 putative active site [active] 323848002945 SEC-C motif; Region: SEC-C; pfam02810 323848002946 TPR repeat; Region: TPR_11; pfam13414 323848002947 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 323848002948 binding surface 323848002949 TPR motif; other site 323848002950 TPR repeat; Region: TPR_11; pfam13414 323848002951 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 323848002952 binding surface 323848002953 TPR motif; other site 323848002954 TPR repeat; Region: TPR_11; pfam13414 323848002955 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 323848002956 binding surface 323848002957 TPR motif; other site 323848002958 TPR repeat; Region: TPR_11; pfam13414 323848002959 TPR repeat; Region: TPR_11; pfam13414 323848002960 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 323848002961 binding surface 323848002962 TPR motif; other site 323848002963 Methyltransferase domain; Region: Methyltransf_31; pfam13847 323848002964 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 323848002965 S-adenosylmethionine binding site [chemical binding]; other site 323848002966 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 323848002967 AAA domain; Region: AAA_33; pfam13671 323848002968 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 323848002969 ATP-binding site [chemical binding]; other site 323848002970 Gluconate-6-phosphate binding site [chemical binding]; other site 323848002971 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 323848002972 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 323848002973 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323848002974 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 323848002975 conserved cys residue [active] 323848002976 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 323848002977 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 323848002978 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 323848002979 RES domain; Region: RES; pfam08808 323848002980 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 323848002981 integrase; Provisional; Region: PRK09692 323848002982 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 323848002983 active site 323848002984 Int/Topo IB signature motif; other site 323848002985 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323848002986 HlyD family secretion protein; Region: HlyD_3; pfam13437 323848002987 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12898 323848002988 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 323848002989 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 323848002990 nucleotide binding region [chemical binding]; other site 323848002991 ATP-binding site [chemical binding]; other site 323848002992 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 323848002993 active site 323848002994 putative substrate binding region [chemical binding]; other site 323848002995 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 323848002996 GAF domain; Region: GAF_3; pfam13492 323848002997 HlyD family secretion protein; Region: HlyD_3; pfam13437 323848002998 HlyD family secretion protein; Region: HlyD_3; pfam13437 323848002999 CARDB; Region: CARDB; pfam07705 323848003000 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 323848003001 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 323848003002 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 323848003003 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 323848003004 active site 323848003005 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 323848003006 Uncharacterized conserved protein [Function unknown]; Region: COG5276 323848003007 SdiA-regulated; Region: SdiA-regulated; cd09971 323848003008 putative active site [active] 323848003009 Solibacter uncharacterized C-terminal domain; Region: Soli_cterm; TIGR03437 323848003010 SdiA-regulated; Region: SdiA-regulated; cd09971 323848003011 putative active site [active] 323848003012 PEP-CTERM motif; Region: VPEP; pfam07589 323848003013 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 323848003014 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 323848003015 active site 323848003016 metal binding site [ion binding]; metal-binding site 323848003017 interdomain interaction site; other site 323848003018 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 323848003019 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 323848003020 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 323848003021 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 323848003022 putative active site [active] 323848003023 putative NTP binding site [chemical binding]; other site 323848003024 putative nucleic acid binding site [nucleotide binding]; other site 323848003025 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 323848003026 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323848003027 active site 323848003028 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 323848003029 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 323848003030 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 323848003031 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 323848003032 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 323848003033 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 323848003034 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 323848003035 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 323848003036 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 323848003037 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 323848003038 urea carboxylase; Region: urea_carbox; TIGR02712 323848003039 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323848003040 ATP-grasp domain; Region: ATP-grasp_4; cl17255 323848003041 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 323848003042 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 323848003043 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 323848003044 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 323848003045 carboxyltransferase (CT) interaction site; other site 323848003046 biotinylation site [posttranslational modification]; other site 323848003047 allophanate hydrolase; Provisional; Region: PRK08186 323848003048 Amidase; Region: Amidase; pfam01425 323848003049 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 323848003050 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 323848003051 putative N-terminal domain interface [polypeptide binding]; other site 323848003052 Predicted transcriptional regulators [Transcription]; Region: COG1733 323848003053 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 323848003054 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 323848003055 FtsX-like permease family; Region: FtsX; pfam02687 323848003056 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 323848003057 active site 323848003058 DNA polymerase IV; Validated; Region: PRK02406 323848003059 DNA binding site [nucleotide binding] 323848003060 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 323848003061 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323848003062 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323848003063 HlyD family secretion protein; Region: HlyD_3; pfam13437 323848003064 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323848003065 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 323848003066 Walker A/P-loop; other site 323848003067 ATP binding site [chemical binding]; other site 323848003068 Q-loop/lid; other site 323848003069 ABC transporter signature motif; other site 323848003070 Walker B; other site 323848003071 D-loop; other site 323848003072 H-loop/switch region; other site 323848003073 Staphylococcal nuclease homologues; Region: SNc; smart00318 323848003074 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 323848003075 Catalytic site; other site 323848003076 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323848003077 FtsX-like permease family; Region: FtsX; pfam02687 323848003078 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323848003079 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 323848003080 FtsX-like permease family; Region: FtsX; pfam02687 323848003081 folate/biopterin transporter; Region: fbt; TIGR00788 323848003082 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 323848003083 substrate binding pocket [chemical binding]; other site 323848003084 substrate-Mg2+ binding site; other site 323848003085 aspartate-rich region 1; other site 323848003086 aspartate-rich region 2; other site 323848003087 TPR repeat; Region: TPR_11; pfam13414 323848003088 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 323848003089 PEP-CTERM motif; Region: VPEP; pfam07589 323848003090 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 323848003091 ADP-ribose binding site [chemical binding]; other site 323848003092 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 323848003093 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 323848003094 active site 323848003095 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 323848003096 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 323848003097 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 323848003098 active site 323848003099 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 323848003100 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 323848003101 putative substrate translocation pore; other site 323848003102 Major Facilitator Superfamily; Region: MFS_1; pfam07690 323848003103 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 323848003104 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 323848003105 active site 323848003106 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 323848003107 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 323848003108 acyl-activating enzyme (AAE) consensus motif; other site 323848003109 AMP binding site [chemical binding]; other site 323848003110 active site 323848003111 CoA binding site [chemical binding]; other site 323848003112 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 323848003113 CoA-transferase family III; Region: CoA_transf_3; pfam02515 323848003114 Ubiquitin-like proteins; Region: UBQ; cl00155 323848003115 charged pocket; other site 323848003116 hydrophobic patch; other site 323848003117 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 323848003118 MPN+ (JAMM) motif; other site 323848003119 Zinc-binding site [ion binding]; other site 323848003120 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 323848003121 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 323848003122 ATP binding site [chemical binding]; other site 323848003123 substrate interface [chemical binding]; other site 323848003124 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 323848003125 active site residue [active] 323848003126 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 323848003127 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 323848003128 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 323848003129 Transglycosylase; Region: Transgly; cl17702 323848003130 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 323848003131 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 323848003132 Protein of unkown function (DUF1881); Region: DUF1881; pfam08964 323848003133 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 323848003134 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 323848003135 dimer interface [polypeptide binding]; other site 323848003136 [2Fe-2S] cluster binding site [ion binding]; other site 323848003137 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 323848003138 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 323848003139 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 323848003140 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323848003141 dimer interface [polypeptide binding]; other site 323848003142 conserved gate region; other site 323848003143 putative PBP binding loops; other site 323848003144 ABC-ATPase subunit interface; other site 323848003145 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323848003146 dimer interface [polypeptide binding]; other site 323848003147 conserved gate region; other site 323848003148 ABC-ATPase subunit interface; other site 323848003149 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 323848003150 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323848003151 Walker A/P-loop; other site 323848003152 ATP binding site [chemical binding]; other site 323848003153 Q-loop/lid; other site 323848003154 ABC transporter signature motif; other site 323848003155 Walker B; other site 323848003156 D-loop; other site 323848003157 H-loop/switch region; other site 323848003158 TOBE domain; Region: TOBE_2; pfam08402 323848003159 RelB antitoxin; Region: RelB; cl01171 323848003160 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 323848003161 putative active site [active] 323848003162 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 323848003163 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 323848003164 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 323848003165 Presynaptic Site I dimer interface [polypeptide binding]; other site 323848003166 catalytic residues [active] 323848003167 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 323848003168 Synaptic Flat tetramer interface [polypeptide binding]; other site 323848003169 Synaptic Site I dimer interface [polypeptide binding]; other site 323848003170 DNA binding site [nucleotide binding] 323848003171 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848003172 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848003173 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848003174 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848003175 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848003176 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 323848003177 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 323848003178 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 323848003179 SCP-2 sterol transfer family; Region: SCP2; pfam02036 323848003180 Tim44-like domain; Region: Tim44; pfam04280 323848003181 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 323848003182 Ligand Binding Site [chemical binding]; other site 323848003183 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 323848003184 Ligand Binding Site [chemical binding]; other site 323848003185 Acetokinase family; Region: Acetate_kinase; cl17229 323848003186 putative phosphoketolase; Provisional; Region: PRK05261 323848003187 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 323848003188 TPP-binding site; other site 323848003189 XFP C-terminal domain; Region: XFP_C; pfam09363 323848003190 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 323848003191 Uncharacterized conserved protein [Function unknown]; Region: COG2128 323848003192 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 323848003193 PEP synthetase regulatory protein; Provisional; Region: PRK05339 323848003194 phosphoenolpyruvate synthase; Validated; Region: PRK06464 323848003195 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 323848003196 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 323848003197 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 323848003198 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323848003199 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848003200 dimer interface [polypeptide binding]; other site 323848003201 phosphorylation site [posttranslational modification] 323848003202 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 323848003203 ATP binding site [chemical binding]; other site 323848003204 Mg2+ binding site [ion binding]; other site 323848003205 G-X-G motif; other site 323848003206 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 323848003207 stringent starvation protein A; Provisional; Region: sspA; PRK09481 323848003208 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 323848003209 C-terminal domain interface [polypeptide binding]; other site 323848003210 putative GSH binding site (G-site) [chemical binding]; other site 323848003211 dimer interface [polypeptide binding]; other site 323848003212 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 323848003213 dimer interface [polypeptide binding]; other site 323848003214 N-terminal domain interface [polypeptide binding]; other site 323848003215 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 323848003216 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 323848003217 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 323848003218 Qi binding site; other site 323848003219 intrachain domain interface; other site 323848003220 interchain domain interface [polypeptide binding]; other site 323848003221 heme bH binding site [chemical binding]; other site 323848003222 heme bL binding site [chemical binding]; other site 323848003223 Qo binding site; other site 323848003224 interchain domain interface [polypeptide binding]; other site 323848003225 intrachain domain interface; other site 323848003226 Qi binding site; other site 323848003227 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 323848003228 Qo binding site; other site 323848003229 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 323848003230 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 323848003231 [2Fe-2S] cluster binding site [ion binding]; other site 323848003232 Domain of unknown function (DUF329); Region: DUF329; pfam03884 323848003233 hypothetical protein; Provisional; Region: PRK08999 323848003234 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 323848003235 active site 323848003236 8-oxo-dGMP binding site [chemical binding]; other site 323848003237 nudix motif; other site 323848003238 metal binding site [ion binding]; metal-binding site 323848003239 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 323848003240 thiamine phosphate binding site [chemical binding]; other site 323848003241 active site 323848003242 pyrophosphate binding site [ion binding]; other site 323848003243 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 323848003244 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848003245 Walker A motif; other site 323848003246 ATP binding site [chemical binding]; other site 323848003247 Walker B motif; other site 323848003248 EF-hand domain pair; Region: EF_hand_5; pfam13499 323848003249 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 323848003250 Ca2+ binding site [ion binding]; other site 323848003251 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 323848003252 heterotetramer interface [polypeptide binding]; other site 323848003253 active site pocket [active] 323848003254 cleavage site 323848003255 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 323848003256 CPxP motif; other site 323848003257 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 323848003258 NADH dehydrogenase subunit B; Validated; Region: PRK06411 323848003259 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 323848003260 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 323848003261 NADH dehydrogenase subunit D; Validated; Region: PRK06075 323848003262 NADH dehydrogenase subunit E; Validated; Region: PRK07539 323848003263 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 323848003264 putative dimer interface [polypeptide binding]; other site 323848003265 [2Fe-2S] cluster binding site [ion binding]; other site 323848003266 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 323848003267 SLBB domain; Region: SLBB; pfam10531 323848003268 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 323848003269 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 323848003270 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 323848003271 catalytic loop [active] 323848003272 iron binding site [ion binding]; other site 323848003273 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 323848003274 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 323848003275 [4Fe-4S] binding site [ion binding]; other site 323848003276 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 323848003277 molybdopterin cofactor binding site; other site 323848003278 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 323848003279 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 323848003280 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 323848003281 4Fe-4S binding domain; Region: Fer4; pfam00037 323848003282 4Fe-4S binding domain; Region: Fer4; pfam00037 323848003283 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 323848003284 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 323848003285 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 323848003286 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 323848003287 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 323848003288 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323848003289 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 323848003290 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323848003291 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 323848003292 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323848003293 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 323848003294 Uncharacterized conserved protein [Function unknown]; Region: COG2835 323848003295 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 323848003296 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 323848003297 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 323848003298 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 323848003299 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 323848003300 generic binding surface II; other site 323848003301 generic binding surface I; other site 323848003302 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 323848003303 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 323848003304 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 323848003305 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 323848003306 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 323848003307 heat shock protein HtpX; Provisional; Region: PRK05457 323848003308 VacJ like lipoprotein; Region: VacJ; cl01073 323848003309 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 323848003310 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 323848003311 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 323848003312 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 323848003313 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 323848003314 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 323848003315 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 323848003316 dimer interface [polypeptide binding]; other site 323848003317 active site residues [active] 323848003318 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 323848003319 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 323848003320 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 lysine...; Region: Orn_deC_like; cd00615 323848003321 homodimer interface [polypeptide binding]; other site 323848003322 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848003323 catalytic residue [active] 323848003324 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 323848003325 acetylornithine aminotransferase; Provisional; Region: PRK02627 323848003326 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 323848003327 inhibitor-cofactor binding pocket; inhibition site 323848003328 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848003329 catalytic residue [active] 323848003330 ornithine carbamoyltransferase; Provisional; Region: PRK00779 323848003331 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 323848003332 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 323848003333 argininosuccinate synthase; Provisional; Region: PRK13820 323848003334 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 323848003335 ANP binding site [chemical binding]; other site 323848003336 Substrate Binding Site II [chemical binding]; other site 323848003337 Substrate Binding Site I [chemical binding]; other site 323848003338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 323848003339 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 323848003340 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 323848003341 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 323848003342 catalytic triad [active] 323848003343 FecR protein; Region: FecR; pfam04773 323848003344 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 323848003345 TolR protein; Region: tolR; TIGR02801 323848003346 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 323848003347 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 323848003348 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 323848003349 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 323848003350 RNA polymerase factor sigma-70; Validated; Region: PRK09047 323848003351 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 323848003352 DNA binding residues [nucleotide binding] 323848003353 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 323848003354 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 323848003355 RDD family; Region: RDD; pfam06271 323848003356 protease TldD; Provisional; Region: tldD; PRK10735 323848003357 nitrilase; Region: PLN02798 323848003358 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 323848003359 putative active site [active] 323848003360 catalytic triad [active] 323848003361 dimer interface [polypeptide binding]; other site 323848003362 TIGR02099 family protein; Region: TIGR02099 323848003363 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 323848003364 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 323848003365 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 323848003366 metal binding triad; other site 323848003367 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 323848003368 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 323848003369 metal binding triad; other site 323848003370 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 323848003371 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 323848003372 homodimer interface [polypeptide binding]; other site 323848003373 substrate-cofactor binding pocket; other site 323848003374 catalytic residue [active] 323848003375 Zinc-finger domain; Region: zf-CHCC; cl01821 323848003376 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 323848003377 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 323848003378 active site 323848003379 substrate binding site [chemical binding]; other site 323848003380 metal binding site [ion binding]; metal-binding site 323848003381 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 323848003382 Low molecular weight phosphatase family; Region: LMWPc; cd00115 323848003383 active site 323848003384 ribonuclease E; Reviewed; Region: rne; PRK10811 323848003385 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 323848003386 homodimer interface [polypeptide binding]; other site 323848003387 oligonucleotide binding site [chemical binding]; other site 323848003388 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 323848003389 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 323848003390 RNA binding surface [nucleotide binding]; other site 323848003391 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 323848003392 active site 323848003393 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 323848003394 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 323848003395 tandem repeat interface [polypeptide binding]; other site 323848003396 oligomer interface [polypeptide binding]; other site 323848003397 active site residues [active] 323848003398 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 323848003399 putative SAM binding site [chemical binding]; other site 323848003400 homodimer interface [polypeptide binding]; other site 323848003401 Maf-like protein; Region: Maf; pfam02545 323848003402 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 323848003403 active site 323848003404 dimer interface [polypeptide binding]; other site 323848003405 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 323848003406 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 323848003407 putative phosphate acyltransferase; Provisional; Region: PRK05331 323848003408 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 323848003409 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 323848003410 dimer interface [polypeptide binding]; other site 323848003411 active site 323848003412 CoA binding pocket [chemical binding]; other site 323848003413 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 323848003414 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 323848003415 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 323848003416 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 323848003417 NAD(P) binding site [chemical binding]; other site 323848003418 homotetramer interface [polypeptide binding]; other site 323848003419 homodimer interface [polypeptide binding]; other site 323848003420 active site 323848003421 acyl carrier protein; Provisional; Region: acpP; PRK00982 323848003422 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 323848003423 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 323848003424 dimer interface [polypeptide binding]; other site 323848003425 active site 323848003426 YceG-like family; Region: YceG; pfam02618 323848003427 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 323848003428 dimerization interface [polypeptide binding]; other site 323848003429 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 323848003430 malate--CoA ligase subunit beta; Provisional; Region: PRK14046 323848003431 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 323848003432 CoA-ligase; Region: Ligase_CoA; pfam00549 323848003433 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 323848003434 CoA binding domain; Region: CoA_binding; smart00881 323848003435 CoA-ligase; Region: Ligase_CoA; pfam00549 323848003436 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 323848003437 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 323848003438 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 323848003439 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 323848003440 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 323848003441 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 323848003442 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323848003443 dimer interface [polypeptide binding]; other site 323848003444 conserved gate region; other site 323848003445 putative PBP binding loops; other site 323848003446 ABC-ATPase subunit interface; other site 323848003447 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 323848003448 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14252 323848003449 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 323848003450 Walker A/P-loop; other site 323848003451 ATP binding site [chemical binding]; other site 323848003452 Q-loop/lid; other site 323848003453 ABC transporter signature motif; other site 323848003454 Walker B; other site 323848003455 D-loop; other site 323848003456 H-loop/switch region; other site 323848003457 triosephosphate isomerase; Provisional; Region: PRK14567 323848003458 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 323848003459 substrate binding site [chemical binding]; other site 323848003460 dimer interface [polypeptide binding]; other site 323848003461 catalytic triad [active] 323848003462 Preprotein translocase SecG subunit; Region: SecG; pfam03840 323848003463 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 323848003464 NADH dehydrogenase subunit B; Validated; Region: PRK06411 323848003465 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 323848003466 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 323848003467 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 323848003468 NADH dehydrogenase subunit D; Validated; Region: PRK06075 323848003469 NADH dehydrogenase subunit E; Validated; Region: PRK07539 323848003470 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 323848003471 putative dimer interface [polypeptide binding]; other site 323848003472 [2Fe-2S] cluster binding site [ion binding]; other site 323848003473 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 323848003474 SLBB domain; Region: SLBB; pfam10531 323848003475 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 323848003476 NADH dehydrogenase subunit G; Validated; Region: PRK09129 323848003477 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 323848003478 catalytic loop [active] 323848003479 iron binding site [ion binding]; other site 323848003480 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 323848003481 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 323848003482 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 323848003483 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 323848003484 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 323848003485 4Fe-4S binding domain; Region: Fer4; pfam00037 323848003486 4Fe-4S binding domain; Region: Fer4; pfam00037 323848003487 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 323848003488 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 323848003489 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 323848003490 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 323848003491 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 323848003492 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323848003493 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 323848003494 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323848003495 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 323848003496 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323848003497 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 323848003498 transmembrane helices; other site 323848003499 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 323848003500 hypothetical protein; Provisional; Region: PRK01842 323848003501 SEC-C motif; Region: SEC-C; pfam02810 323848003502 serine/threonine protein kinase; Provisional; Region: PRK11768 323848003503 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 323848003504 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 323848003505 heat shock protein 90; Provisional; Region: PRK05218 323848003506 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 323848003507 ATP binding site [chemical binding]; other site 323848003508 Mg2+ binding site [ion binding]; other site 323848003509 G-X-G motif; other site 323848003510 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 323848003511 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323848003512 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 323848003513 putative dimerization interface [polypeptide binding]; other site 323848003514 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 323848003515 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323848003516 HlyD family secretion protein; Region: HlyD_3; pfam13437 323848003517 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 323848003518 Nitrogen regulatory protein P-II; Region: P-II; cl00412 323848003519 Nitrogen regulatory protein P-II; Region: P-II; smart00938 323848003520 Nitrogen regulatory protein P-II; Region: P-II; cl00412 323848003521 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 323848003522 feedback inhibition sensing region; other site 323848003523 homohexameric interface [polypeptide binding]; other site 323848003524 nucleotide binding site [chemical binding]; other site 323848003525 N-acetyl-L-glutamate binding site [chemical binding]; other site 323848003526 division inhibitor protein; Provisional; Region: slmA; PRK09480 323848003527 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323848003528 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 323848003529 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 323848003530 ATP binding site [chemical binding]; other site 323848003531 substrate interface [chemical binding]; other site 323848003532 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 323848003533 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 323848003534 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 323848003535 protein binding site [polypeptide binding]; other site 323848003536 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 323848003537 Catalytic dyad [active] 323848003538 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 323848003539 Peptidase family M23; Region: Peptidase_M23; pfam01551 323848003540 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 323848003541 catalytic core [active] 323848003542 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 323848003543 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 323848003544 active site residue [active] 323848003545 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 323848003546 GSH binding site [chemical binding]; other site 323848003547 catalytic residues [active] 323848003548 preprotein translocase subunit SecB; Validated; Region: PRK05751 323848003549 SecA binding site; other site 323848003550 Preprotein binding site; other site 323848003551 Bacterial SH3 domain; Region: SH3_4; pfam06347 323848003552 Src Homology 3 domain superfamily; Region: SH3; cl17036 323848003553 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 323848003554 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 323848003555 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 323848003556 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 323848003557 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 323848003558 Hydrogenase formation hypA family; Region: HypD; cl12072 323848003559 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323848003560 active site 323848003561 biotin synthase; Region: bioB; TIGR00433 323848003562 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 323848003563 FeS/SAM binding site; other site 323848003564 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 323848003565 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 323848003566 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 323848003567 substrate-cofactor binding pocket; other site 323848003568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848003569 catalytic residue [active] 323848003570 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 323848003571 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 323848003572 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 323848003573 S-adenosylmethionine binding site [chemical binding]; other site 323848003574 AAA domain; Region: AAA_26; pfam13500 323848003575 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 323848003576 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 323848003577 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 323848003578 potential catalytic triad [active] 323848003579 conserved cys residue [active] 323848003580 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 323848003581 DNA-binding site [nucleotide binding]; DNA binding site 323848003582 RNA-binding motif; other site 323848003583 Membrane protein of unknown function; Region: DUF360; pfam04020 323848003584 Response regulator receiver domain; Region: Response_reg; pfam00072 323848003585 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 323848003586 active site 323848003587 phosphorylation site [posttranslational modification] 323848003588 intermolecular recognition site; other site 323848003589 dimerization interface [polypeptide binding]; other site 323848003590 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 323848003591 PAS fold; Region: PAS_3; pfam08447 323848003592 putative active site [active] 323848003593 heme pocket [chemical binding]; other site 323848003594 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323848003595 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323848003596 metal binding site [ion binding]; metal-binding site 323848003597 active site 323848003598 I-site; other site 323848003599 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 323848003600 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 323848003601 Cupin superfamily protein; Region: Cupin_4; pfam08007 323848003602 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 323848003603 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 323848003604 ATP binding site [chemical binding]; other site 323848003605 Mg2+ binding site [ion binding]; other site 323848003606 G-X-G motif; other site 323848003607 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 323848003608 ATP binding site [chemical binding]; other site 323848003609 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 323848003610 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 323848003611 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323848003612 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 323848003613 substrate binding site [chemical binding]; other site 323848003614 dimerization interface [polypeptide binding]; other site 323848003615 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 323848003616 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 323848003617 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 323848003618 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 323848003619 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 323848003620 Active Sites [active] 323848003621 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 323848003622 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 323848003623 Active Sites [active] 323848003624 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 323848003625 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 323848003626 CysD dimerization site [polypeptide binding]; other site 323848003627 G1 box; other site 323848003628 putative GEF interaction site [polypeptide binding]; other site 323848003629 GTP/Mg2+ binding site [chemical binding]; other site 323848003630 Switch I region; other site 323848003631 G2 box; other site 323848003632 G3 box; other site 323848003633 Switch II region; other site 323848003634 G4 box; other site 323848003635 G5 box; other site 323848003636 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 323848003637 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 323848003638 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 323848003639 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 323848003640 FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate...; Region: DHOD_e_trans_like; cd06192 323848003641 FAD binding pocket [chemical binding]; other site 323848003642 FAD binding motif [chemical binding]; other site 323848003643 phosphate binding motif [ion binding]; other site 323848003644 beta-alpha-beta structure motif; other site 323848003645 NAD binding pocket [chemical binding]; other site 323848003646 Iron coordination center [ion binding]; other site 323848003647 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 323848003648 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 323848003649 ligand binding site [chemical binding]; other site 323848003650 homodimer interface [polypeptide binding]; other site 323848003651 NAD(P) binding site [chemical binding]; other site 323848003652 trimer interface B [polypeptide binding]; other site 323848003653 trimer interface A [polypeptide binding]; other site 323848003654 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 323848003655 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 323848003656 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 323848003657 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 323848003658 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 323848003659 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 323848003660 hexamer interface [polypeptide binding]; other site 323848003661 ligand binding site [chemical binding]; other site 323848003662 putative active site [active] 323848003663 NAD(P) binding site [chemical binding]; other site 323848003664 putative cation:proton antiport protein; Provisional; Region: PRK10669 323848003665 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 323848003666 TrkA-N domain; Region: TrkA_N; pfam02254 323848003667 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 323848003668 ArsC family; Region: ArsC; pfam03960 323848003669 catalytic residues [active] 323848003670 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323848003671 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848003672 dimer interface [polypeptide binding]; other site 323848003673 phosphorylation site [posttranslational modification] 323848003674 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 323848003675 ATP binding site [chemical binding]; other site 323848003676 Mg2+ binding site [ion binding]; other site 323848003677 G-X-G motif; other site 323848003678 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 323848003679 response regulator GlrR; Provisional; Region: PRK15115 323848003680 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 323848003681 active site 323848003682 phosphorylation site [posttranslational modification] 323848003683 intermolecular recognition site; other site 323848003684 dimerization interface [polypeptide binding]; other site 323848003685 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848003686 Walker A motif; other site 323848003687 ATP binding site [chemical binding]; other site 323848003688 Walker B motif; other site 323848003689 arginine finger; other site 323848003690 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 323848003691 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 323848003692 Erythromycin esterase; Region: Erythro_esteras; pfam05139 323848003693 Kazal-type serine protease inhibitor domain; Region: Kazal_1; pfam00050 323848003694 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 323848003695 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 323848003696 putative dimer interface [polypeptide binding]; other site 323848003697 FOG: CBS domain [General function prediction only]; Region: COG0517 323848003698 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 323848003699 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 323848003700 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 323848003701 putative dimer interface [polypeptide binding]; other site 323848003702 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 323848003703 substrate binding site [chemical binding]; other site 323848003704 Rhamnan synthesis protein F; Region: RgpF; pfam05045 323848003705 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 323848003706 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323848003707 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323848003708 Walker A/P-loop; other site 323848003709 ATP binding site [chemical binding]; other site 323848003710 Q-loop/lid; other site 323848003711 ABC transporter signature motif; other site 323848003712 Walker B; other site 323848003713 D-loop; other site 323848003714 H-loop/switch region; other site 323848003715 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 323848003716 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 323848003717 putative DNA binding site [nucleotide binding]; other site 323848003718 putative homodimer interface [polypeptide binding]; other site 323848003719 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 323848003720 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 323848003721 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 323848003722 active site 323848003723 DNA binding site [nucleotide binding] 323848003724 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 323848003725 DNA binding site [nucleotide binding] 323848003726 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 323848003727 nucleotide binding site [chemical binding]; other site 323848003728 O-methyltransferase; Region: Methyltransf_2; pfam00891 323848003729 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_10; cd08865 323848003730 putative hydrophobic ligand binding site [chemical binding]; other site 323848003731 short chain dehydrogenase; Provisional; Region: PRK06701 323848003732 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 323848003733 NAD binding site [chemical binding]; other site 323848003734 metal binding site [ion binding]; metal-binding site 323848003735 active site 323848003736 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 323848003737 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 323848003738 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 323848003739 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; cl00047 323848003740 ligand binding site [chemical binding]; other site 323848003741 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 323848003742 Putative glucoamylase; Region: Glycoamylase; pfam10091 323848003743 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 323848003744 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 323848003745 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 323848003746 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 323848003747 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; cl00047 323848003748 ligand binding site [chemical binding]; other site 323848003749 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 323848003750 Fatty acyltransferase-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; its...; Region: fatty_acyltransferase_like; cd01846 323848003751 active site 323848003752 catalytic triad [active] 323848003753 oxyanion hole [active] 323848003754 PEP-CTERM motif; Region: VPEP; pfam07589 323848003755 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 323848003756 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 323848003757 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 323848003758 conserved cys residue [active] 323848003759 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 323848003760 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323848003761 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848003762 dimer interface [polypeptide binding]; other site 323848003763 phosphorylation site [posttranslational modification] 323848003764 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 323848003765 ATP binding site [chemical binding]; other site 323848003766 Mg2+ binding site [ion binding]; other site 323848003767 G-X-G motif; other site 323848003768 Response regulator receiver domain; Region: Response_reg; pfam00072 323848003769 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 323848003770 active site 323848003771 phosphorylation site [posttranslational modification] 323848003772 intermolecular recognition site; other site 323848003773 dimerization interface [polypeptide binding]; other site 323848003774 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 323848003775 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 323848003776 substrate binding pocket [chemical binding]; other site 323848003777 membrane-bound complex binding site; other site 323848003778 hinge residues; other site 323848003779 periplasmic protein; Provisional; Region: PRK10568 323848003780 BON domain; Region: BON; pfam04972 323848003781 BON domain; Region: BON; pfam04972 323848003782 CsbD-like; Region: CsbD; cl17424 323848003783 periplasmic protein; Provisional; Region: PRK10568 323848003784 BON domain; Region: BON; pfam04972 323848003785 BON domain; Region: BON; pfam04972 323848003786 CsbD-like; Region: CsbD; cl17424 323848003787 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 323848003788 FOG: CBS domain [General function prediction only]; Region: COG0517 323848003789 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 323848003790 GMP synthase; Reviewed; Region: guaA; PRK00074 323848003791 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 323848003792 AMP/PPi binding site [chemical binding]; other site 323848003793 candidate oxyanion hole; other site 323848003794 catalytic triad [active] 323848003795 potential glutamine specificity residues [chemical binding]; other site 323848003796 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 323848003797 ATP Binding subdomain [chemical binding]; other site 323848003798 Ligand Binding sites [chemical binding]; other site 323848003799 Dimerization subdomain; other site 323848003800 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 323848003801 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 323848003802 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 323848003803 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 323848003804 active site 323848003805 hypothetical protein; Validated; Region: PRK01777 323848003806 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 323848003807 putative coenzyme Q binding site [chemical binding]; other site 323848003808 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 323848003809 SmpB-tmRNA interface; other site 323848003810 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 323848003811 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 323848003812 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 323848003813 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 323848003814 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 323848003815 binding surface 323848003816 TPR motif; other site 323848003817 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 323848003818 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 323848003819 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 323848003820 catalytic residues [active] 323848003821 central insert; other site 323848003822 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 323848003823 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 323848003824 heme exporter protein CcmD; Region: cytochro_ccmD; TIGR03141 323848003825 heme exporter protein CcmC; Region: ccmC; TIGR01191 323848003826 AlkA N-terminal domain; Region: AlkA_N; smart01009 323848003827 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 323848003828 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 323848003829 minor groove reading motif; other site 323848003830 helix-hairpin-helix signature motif; other site 323848003831 substrate binding pocket [chemical binding]; other site 323848003832 active site 323848003833 glutamate racemase; Provisional; Region: PRK00865 323848003834 putative acetyltransferase; Provisional; Region: PRK03624 323848003835 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323848003836 Coenzyme A binding pocket [chemical binding]; other site 323848003837 heme exporter protein CcmB; Region: ccmB; TIGR01190 323848003838 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323848003839 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 323848003840 Walker A/P-loop; other site 323848003841 ATP binding site [chemical binding]; other site 323848003842 Q-loop/lid; other site 323848003843 ABC transporter signature motif; other site 323848003844 Walker B; other site 323848003845 D-loop; other site 323848003846 H-loop/switch region; other site 323848003847 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 323848003848 putative dimer interface [polypeptide binding]; other site 323848003849 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323848003850 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 323848003851 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 323848003852 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 323848003853 metal ion-dependent adhesion site (MIDAS); other site 323848003854 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 323848003855 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 323848003856 nucleoside/Zn binding site; other site 323848003857 dimer interface [polypeptide binding]; other site 323848003858 catalytic motif [active] 323848003859 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 323848003860 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 323848003861 CTP synthetase; Validated; Region: pyrG; PRK05380 323848003862 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 323848003863 Catalytic site [active] 323848003864 active site 323848003865 UTP binding site [chemical binding]; other site 323848003866 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 323848003867 active site 323848003868 putative oxyanion hole; other site 323848003869 catalytic triad [active] 323848003870 enolase; Provisional; Region: eno; PRK00077 323848003871 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 323848003872 dimer interface [polypeptide binding]; other site 323848003873 metal binding site [ion binding]; metal-binding site 323848003874 substrate binding pocket [chemical binding]; other site 323848003875 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 323848003876 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 323848003877 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 323848003878 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 323848003879 ABC-ATPase subunit interface; other site 323848003880 dimer interface [polypeptide binding]; other site 323848003881 putative PBP binding regions; other site 323848003882 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 323848003883 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 323848003884 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 323848003885 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 323848003886 intersubunit interface [polypeptide binding]; other site 323848003887 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 323848003888 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 323848003889 nickel responsive regulator; Provisional; Region: PRK02967 323848003890 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 323848003891 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 323848003892 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 323848003893 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 323848003894 active site 323848003895 phosphorylation site [posttranslational modification] 323848003896 intermolecular recognition site; other site 323848003897 dimerization interface [polypeptide binding]; other site 323848003898 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 323848003899 DNA binding residues [nucleotide binding] 323848003900 dimerization interface [polypeptide binding]; other site 323848003901 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 323848003902 dimerization interface [polypeptide binding]; other site 323848003903 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 323848003904 Histidine kinase; Region: HisKA_3; pfam07730 323848003905 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 323848003906 ATP binding site [chemical binding]; other site 323848003907 Mg2+ binding site [ion binding]; other site 323848003908 G-X-G motif; other site 323848003909 UreD urease accessory protein; Region: UreD; pfam01774 323848003910 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 323848003911 alpha-gamma subunit interface [polypeptide binding]; other site 323848003912 beta-gamma subunit interface [polypeptide binding]; other site 323848003913 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 323848003914 gamma-beta subunit interface [polypeptide binding]; other site 323848003915 alpha-beta subunit interface [polypeptide binding]; other site 323848003916 urease subunit alpha; Reviewed; Region: ureC; PRK13207 323848003917 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 323848003918 subunit interactions [polypeptide binding]; other site 323848003919 active site 323848003920 flap region; other site 323848003921 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 323848003922 dimer interface [polypeptide binding]; other site 323848003923 catalytic residues [active] 323848003924 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 323848003925 UreF; Region: UreF; pfam01730 323848003926 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 323848003927 G1 box; other site 323848003928 GTP/Mg2+ binding site [chemical binding]; other site 323848003929 G2 box; other site 323848003930 Switch I region; other site 323848003931 G3 box; other site 323848003932 Switch II region; other site 323848003933 G4 box; other site 323848003934 G5 box; other site 323848003935 urea transporter, Yersinia type; Region: urea_trans_yut; TIGR03441 323848003936 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323848003937 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 323848003938 DNA binding site [nucleotide binding] 323848003939 AAA ATPase domain; Region: AAA_16; pfam13191 323848003940 Predicted ATPase [General function prediction only]; Region: COG3899 323848003941 Winged helix-turn helix; Region: HTH_29; pfam13551 323848003942 Helix-turn-helix domain; Region: HTH_28; pfam13518 323848003943 Integrase core domain; Region: rve; pfam00665 323848003944 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 323848003945 Integrase core domain; Region: rve_3; pfam13683 323848003946 PEP-CTERM motif; Region: VPEP; pfam07589 323848003947 trehalose synthase; Region: treS_nterm; TIGR02456 323848003948 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 323848003949 Ca binding site [ion binding]; other site 323848003950 active site 323848003951 catalytic site [active] 323848003952 amino acid transporter; Region: 2A0306; TIGR00909 323848003953 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 323848003954 metal ion-dependent adhesion site (MIDAS); other site 323848003955 MoxR-like ATPases [General function prediction only]; Region: COG0714 323848003956 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 323848003957 Walker A motif; other site 323848003958 ATP binding site [chemical binding]; other site 323848003959 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 323848003960 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 323848003961 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 323848003962 Cytochrome c; Region: Cytochrom_C; pfam00034 323848003963 Cytochrome c; Region: Cytochrom_C; cl11414 323848003964 Secretin and TonB N terminus short domain; Region: STN; smart00965 323848003965 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 323848003966 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 323848003967 N-terminal plug; other site 323848003968 ligand-binding site [chemical binding]; other site 323848003969 Protein of unknown function (DUF466); Region: DUF466; pfam04328 323848003970 carbon starvation protein A; Provisional; Region: PRK15015 323848003971 Carbon starvation protein CstA; Region: CstA; pfam02554 323848003972 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 323848003973 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 323848003974 active site 323848003975 DNA binding site [nucleotide binding] 323848003976 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 323848003977 EamA-like transporter family; Region: EamA; pfam00892 323848003978 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 323848003979 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 323848003980 translation elongation factor P; Region: efp; TIGR00038 323848003981 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 323848003982 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 323848003983 RNA binding site [nucleotide binding]; other site 323848003984 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 323848003985 RNA binding site [nucleotide binding]; other site 323848003986 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 323848003987 Fe-S cluster binding site [ion binding]; other site 323848003988 DNA binding site [nucleotide binding] 323848003989 active site 323848003990 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 323848003991 active site 1 [active] 323848003992 dimer interface [polypeptide binding]; other site 323848003993 hexamer interface [polypeptide binding]; other site 323848003994 active site 2 [active] 323848003995 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 323848003996 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 323848003997 GIY-YIG motif/motif A; other site 323848003998 active site 323848003999 catalytic site [active] 323848004000 putative DNA binding site [nucleotide binding]; other site 323848004001 metal binding site [ion binding]; metal-binding site 323848004002 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 323848004003 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 323848004004 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 323848004005 SGNH_hydrolase, or GDSL_hydrolase, is 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; its active site closely...; Region: SGNH_hydrolase; cl01053 323848004006 Protein of unknown function (DUF2591); Region: DUF2591; pfam10765 323848004007 Response regulator receiver domain; Region: Response_reg; pfam00072 323848004008 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 323848004009 active site 323848004010 phosphorylation site [posttranslational modification] 323848004011 intermolecular recognition site; other site 323848004012 dimerization interface [polypeptide binding]; other site 323848004013 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 323848004014 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323848004015 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 323848004016 Walker A/P-loop; other site 323848004017 ATP binding site [chemical binding]; other site 323848004018 Q-loop/lid; other site 323848004019 ABC transporter signature motif; other site 323848004020 Walker B; other site 323848004021 D-loop; other site 323848004022 H-loop/switch region; other site 323848004023 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 323848004024 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323848004025 HlyD family secretion protein; Region: HlyD_3; pfam13437 323848004026 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 323848004027 Protein of unknown function DUF72; Region: DUF72; pfam01904 323848004028 Cupin domain; Region: Cupin_2; pfam07883 323848004029 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 323848004030 Fe-S cluster binding site [ion binding]; other site 323848004031 active site 323848004032 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323848004033 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 323848004034 active site 323848004035 phosphorylation site [posttranslational modification] 323848004036 intermolecular recognition site; other site 323848004037 dimerization interface [polypeptide binding]; other site 323848004038 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 323848004039 PAS fold; Region: PAS_3; pfam08447 323848004040 putative active site [active] 323848004041 heme pocket [chemical binding]; other site 323848004042 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323848004043 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848004044 dimer interface [polypeptide binding]; other site 323848004045 phosphorylation site [posttranslational modification] 323848004046 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 323848004047 ATP binding site [chemical binding]; other site 323848004048 Mg2+ binding site [ion binding]; other site 323848004049 G-X-G motif; other site 323848004050 Response regulator receiver domain; Region: Response_reg; pfam00072 323848004051 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 323848004052 active site 323848004053 phosphorylation site [posttranslational modification] 323848004054 intermolecular recognition site; other site 323848004055 dimerization interface [polypeptide binding]; other site 323848004056 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 323848004057 Tar ligand binding domain homologue; Region: TarH; pfam02203 323848004058 dimer interface [polypeptide binding]; other site 323848004059 ligand binding site [chemical binding]; other site 323848004060 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 323848004061 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 323848004062 dimerization interface [polypeptide binding]; other site 323848004063 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 323848004064 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 323848004065 putative active site [active] 323848004066 heme pocket [chemical binding]; other site 323848004067 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848004068 dimer interface [polypeptide binding]; other site 323848004069 phosphorylation site [posttranslational modification] 323848004070 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 323848004071 ATP binding site [chemical binding]; other site 323848004072 Mg2+ binding site [ion binding]; other site 323848004073 G-X-G motif; other site 323848004074 CHRD domain; Region: CHRD; pfam07452 323848004075 PEP-CTERM motif; Region: VPEP; pfam07589 323848004076 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 323848004077 DNA-binding site [nucleotide binding]; DNA binding site 323848004078 RNA-binding motif; other site 323848004079 oxidoreductase; Provisional; Region: PRK06128 323848004080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323848004081 NAD(P) binding site [chemical binding]; other site 323848004082 active site 323848004083 HTH-like domain; Region: HTH_21; pfam13276 323848004084 Integrase core domain; Region: rve; pfam00665 323848004085 Integrase core domain; Region: rve_3; cl15866 323848004086 Transposase; Region: HTH_Tnp_1; pfam01527 323848004087 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 323848004088 HTH-like domain; Region: HTH_21; pfam13276 323848004089 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848004090 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848004091 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848004092 Transposase; Region: HTH_Tnp_1; pfam01527 323848004093 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 323848004094 HTH-like domain; Region: HTH_21; pfam13276 323848004095 Integrase core domain; Region: rve; pfam00665 323848004096 Integrase core domain; Region: rve_3; pfam13683 323848004097 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 323848004098 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 323848004099 HIRAN domain; Region: HIRAN; cl07418 323848004100 transcriptional activator FlhD; Provisional; Region: PRK02909 323848004101 transcriptional activator FlhC; Provisional; Region: PRK12722 323848004102 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 323848004103 flagellar motor protein MotA; Validated; Region: PRK09110 323848004104 flagellar motor protein MotB; Validated; Region: motB; PRK09041 323848004105 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 323848004106 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323848004107 ligand binding site [chemical binding]; other site 323848004108 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 323848004109 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 323848004110 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 323848004111 FHIPEP family; Region: FHIPEP; pfam00771 323848004112 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 323848004113 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 323848004114 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 323848004115 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 323848004116 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 323848004117 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323848004118 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 323848004119 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 323848004120 DNA binding residues [nucleotide binding] 323848004121 flagellar motor protein; Reviewed; Region: motC; PRK09109 323848004122 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 323848004123 flagellar motor protein MotD; Reviewed; Region: PRK09038 323848004124 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 323848004125 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323848004126 ligand binding site [chemical binding]; other site 323848004127 FlgN protein; Region: FlgN; pfam05130 323848004128 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 323848004129 SAF-like; Region: SAF_2; pfam13144 323848004130 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 323848004131 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848004132 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848004133 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848004134 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 323848004135 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 323848004136 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 323848004137 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 323848004138 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 323848004139 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 323848004140 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 323848004141 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 323848004142 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 323848004143 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 323848004144 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 323848004145 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 323848004146 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 323848004147 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 323848004148 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 323848004149 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 323848004150 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12699 323848004151 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 323848004152 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 323848004153 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 323848004154 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 323848004155 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 323848004156 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 323848004157 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 323848004158 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 323848004159 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 323848004160 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 323848004161 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 323848004162 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 323848004163 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 323848004164 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 323848004165 catalytic residues [active] 323848004166 PAS fold; Region: PAS_3; pfam08447 323848004167 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 323848004168 ATP binding site [chemical binding]; other site 323848004169 Mg2+ binding site [ion binding]; other site 323848004170 G-X-G motif; other site 323848004171 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 323848004172 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 323848004173 active site 323848004174 phosphorylation site [posttranslational modification] 323848004175 intermolecular recognition site; other site 323848004176 dimerization interface [polypeptide binding]; other site 323848004177 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 323848004178 DNA binding residues [nucleotide binding] 323848004179 dimerization interface [polypeptide binding]; other site 323848004180 flagellin; Reviewed; Region: PRK08869 323848004181 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 323848004182 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 323848004183 FlaG protein; Region: FlaG; pfam03646 323848004184 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 323848004185 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 323848004186 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 323848004187 flagellar protein FliS; Validated; Region: fliS; PRK05685 323848004188 Flagellar protein FliT; Region: FliT; pfam05400 323848004189 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 323848004190 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 323848004191 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 323848004192 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 323848004193 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 323848004194 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 323848004195 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 323848004196 FliG C-terminal domain; Region: FliG_C; pfam01706 323848004197 flagellar assembly protein H; Validated; Region: fliH; PRK05687 323848004198 Flagellar assembly protein FliH; Region: FliH; pfam02108 323848004199 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 323848004200 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 323848004201 Walker A motif/ATP binding site; other site 323848004202 Walker B motif; other site 323848004203 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 323848004204 Flagellar FliJ protein; Region: FliJ; pfam02050 323848004205 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 323848004206 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 323848004207 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 323848004208 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 323848004209 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 323848004210 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 323848004211 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 323848004212 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 323848004213 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 323848004214 aspartate aminotransferase; Provisional; Region: PRK05764 323848004215 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 323848004216 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848004217 homodimer interface [polypeptide binding]; other site 323848004218 catalytic residue [active] 323848004219 excinuclease ABC subunit B; Provisional; Region: PRK05298 323848004220 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 323848004221 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 323848004222 ATP-binding site [chemical binding]; other site 323848004223 ATP binding site [chemical binding]; other site 323848004224 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 323848004225 nucleotide binding region [chemical binding]; other site 323848004226 ATP-binding site [chemical binding]; other site 323848004227 Ultra-violet resistance protein B; Region: UvrB; pfam12344 323848004228 UvrB/uvrC motif; Region: UVR; pfam02151 323848004229 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 323848004230 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 323848004231 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323848004232 catalytic residue [active] 323848004233 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 323848004234 active site 323848004235 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 323848004236 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 323848004237 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 323848004238 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 323848004239 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 323848004240 potential catalytic triad [active] 323848004241 conserved cys residue [active] 323848004242 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 323848004243 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 323848004244 NAD(P) binding site [chemical binding]; other site 323848004245 Uncharacterized conserved protein [Function unknown]; Region: COG3791 323848004246 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 323848004247 Family description; Region: VCBS; pfam13517 323848004248 Family description; Region: VCBS; pfam13517 323848004249 Family description; Region: VCBS; pfam13517 323848004250 Family description; Region: VCBS; pfam13517 323848004251 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 323848004252 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 323848004253 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 323848004254 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 323848004255 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323848004256 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 323848004257 binding surface 323848004258 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323848004259 TPR motif; other site 323848004260 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323848004261 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 323848004262 dimer interface [polypeptide binding]; other site 323848004263 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 323848004264 MgtC family; Region: MgtC; pfam02308 323848004265 Protein of unknown function (DUF1269); Region: DUF1269; pfam06897 323848004266 short chain dehydrogenase; Provisional; Region: PRK12937 323848004267 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 323848004268 NADP binding site [chemical binding]; other site 323848004269 homodimer interface [polypeptide binding]; other site 323848004270 active site 323848004271 substrate binding site [chemical binding]; other site 323848004272 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 323848004273 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323848004274 dimer interface [polypeptide binding]; other site 323848004275 putative metal binding site [ion binding]; other site 323848004276 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 323848004277 Ankyrin repeat; Region: Ank; pfam00023 323848004278 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 323848004279 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 323848004280 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 323848004281 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 323848004282 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 323848004283 active site 323848004284 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 323848004285 DNA binding site [nucleotide binding] 323848004286 dimer interface [polypeptide binding]; other site 323848004287 active site 323848004288 Int/Topo IB signature motif; other site 323848004289 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 323848004290 DDE superfamily endonuclease; Region: DDE_3; pfam13358 323848004291 DNA polymerase III subunit delta'; Validated; Region: PRK06964 323848004292 DNA polymerase III subunit delta'; Validated; Region: PRK08485 323848004293 thymidylate kinase; Validated; Region: tmk; PRK00698 323848004294 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 323848004295 TMP-binding site; other site 323848004296 ATP-binding site [chemical binding]; other site 323848004297 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 323848004298 TIGR03118 family protein; Region: PEPCTERM_chp_1 323848004299 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 323848004300 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 323848004301 ATP binding site [chemical binding]; other site 323848004302 putative Mg++ binding site [ion binding]; other site 323848004303 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 323848004304 nucleotide binding region [chemical binding]; other site 323848004305 ATP-binding site [chemical binding]; other site 323848004306 Helicase associated domain (HA2); Region: HA2; pfam04408 323848004307 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 323848004308 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 323848004309 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 323848004310 active site 323848004311 phosphate binding residues; other site 323848004312 catalytic residues [active] 323848004313 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 323848004314 maltose O-acetyltransferase; Provisional; Region: PRK10092 323848004315 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 323848004316 active site 323848004317 substrate binding site [chemical binding]; other site 323848004318 trimer interface [polypeptide binding]; other site 323848004319 CoA binding site [chemical binding]; other site 323848004320 Predicted transcriptional regulators [Transcription]; Region: COG1733 323848004321 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 323848004322 Patatin-like phospholipase; Region: Patatin; pfam01734 323848004323 active site 323848004324 nucleophile elbow; other site 323848004325 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 323848004326 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 323848004327 putative NAD(P) binding site [chemical binding]; other site 323848004328 putative substrate binding site [chemical binding]; other site 323848004329 catalytic Zn binding site [ion binding]; other site 323848004330 structural Zn binding site [ion binding]; other site 323848004331 dimer interface [polypeptide binding]; other site 323848004332 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 323848004333 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 323848004334 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 323848004335 active site 323848004336 catalytic site [active] 323848004337 putative bifunctional 4-alpha-glucanotransferase/malto-oligosyltrehalose synthase; Provisional; Region: PRK14507 323848004338 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 323848004339 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 323848004340 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 323848004341 active site 323848004342 catalytic site [active] 323848004343 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 323848004344 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 323848004345 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 323848004346 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 323848004347 catalytic site [active] 323848004348 active site 323848004349 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 323848004350 trehalose synthase; Region: treS_nterm; TIGR02456 323848004351 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 323848004352 active site 323848004353 catalytic site [active] 323848004354 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 323848004355 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 323848004356 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 323848004357 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 323848004358 HlyD family secretion protein; Region: HlyD_3; pfam13437 323848004359 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 323848004360 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 323848004361 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 323848004362 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 323848004363 DEAD/DEAH box helicase; Region: DEAD; pfam00270 323848004364 ATP binding site [chemical binding]; other site 323848004365 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 323848004366 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 323848004367 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 323848004368 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 323848004369 acyl-activating enzyme (AAE) consensus motif; other site 323848004370 acyl-activating enzyme (AAE) consensus motif; other site 323848004371 putative AMP binding site [chemical binding]; other site 323848004372 putative active site [active] 323848004373 putative CoA binding site [chemical binding]; other site 323848004374 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 323848004375 ABC-2 type transporter; Region: ABC2_membrane; cl17235 323848004376 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 323848004377 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 323848004378 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 323848004379 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 323848004380 Walker A/P-loop; other site 323848004381 ATP binding site [chemical binding]; other site 323848004382 Q-loop/lid; other site 323848004383 ABC transporter signature motif; other site 323848004384 Walker B; other site 323848004385 D-loop; other site 323848004386 H-loop/switch region; other site 323848004387 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 323848004388 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323848004389 Walker A/P-loop; other site 323848004390 ATP binding site [chemical binding]; other site 323848004391 Q-loop/lid; other site 323848004392 ABC transporter signature motif; other site 323848004393 Walker B; other site 323848004394 D-loop; other site 323848004395 H-loop/switch region; other site 323848004396 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 323848004397 HlyD family secretion protein; Region: HlyD_3; pfam13437 323848004398 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 323848004399 Protein of unknown function (DUF1264); Region: DUF1264; pfam06884 323848004400 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 323848004401 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 323848004402 N-terminal plug; other site 323848004403 ligand-binding site [chemical binding]; other site 323848004404 Winged helix-turn helix; Region: HTH_29; pfam13551 323848004405 Helix-turn-helix domain; Region: HTH_28; pfam13518 323848004406 Integrase core domain; Region: rve; pfam00665 323848004407 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 323848004408 Integrase core domain; Region: rve_3; pfam13683 323848004409 O-Antigen ligase; Region: Wzy_C; pfam04932 323848004410 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 323848004411 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 323848004412 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 323848004413 Probable Catalytic site; other site 323848004414 Transposase; Region: HTH_Tnp_1; pfam01527 323848004415 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 323848004416 HTH-like domain; Region: HTH_21; pfam13276 323848004417 Integrase core domain; Region: rve; pfam00665 323848004418 Integrase core domain; Region: rve_3; cl15866 323848004419 Winged helix-turn helix; Region: HTH_29; pfam13551 323848004420 Helix-turn-helix domain; Region: HTH_28; pfam13518 323848004421 Integrase core domain; Region: rve; pfam00665 323848004422 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 323848004423 Integrase core domain; Region: rve_3; pfam13683 323848004424 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 323848004425 Integrase core domain; Region: rve_3; pfam13683 323848004426 HTH-like domain; Region: HTH_21; pfam13276 323848004427 Integrase core domain; Region: rve; pfam00665 323848004428 Transposase; Region: HTH_Tnp_1; pfam01527 323848004429 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 323848004430 catalytic residue [active] 323848004431 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 323848004432 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 323848004433 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 323848004434 Phage terminase large subunit; Region: Terminase_3; cl12054 323848004435 Terminase-like family; Region: Terminase_6; pfam03237 323848004436 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 323848004437 putative active site [active] 323848004438 thiamine pyrophosphate protein; Provisional; Region: PRK08273 323848004439 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 323848004440 PYR/PP interface [polypeptide binding]; other site 323848004441 dimer interface [polypeptide binding]; other site 323848004442 tetramer interface [polypeptide binding]; other site 323848004443 TPP binding site [chemical binding]; other site 323848004444 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 323848004445 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 323848004446 TPP-binding site [chemical binding]; other site 323848004447 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 323848004448 Predicted flavoprotein [General function prediction only]; Region: COG0431 323848004449 Pirin-related protein [General function prediction only]; Region: COG1741 323848004450 Pirin; Region: Pirin; pfam02678 323848004451 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 323848004452 LysR family transcriptional regulator; Provisional; Region: PRK14997 323848004453 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323848004454 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 323848004455 putative effector binding pocket; other site 323848004456 putative dimerization interface [polypeptide binding]; other site 323848004457 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 323848004458 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 323848004459 catalytic Zn binding site [ion binding]; other site 323848004460 NAD binding site [chemical binding]; other site 323848004461 structural Zn binding site [ion binding]; other site 323848004462 PEP-CTERM motif; Region: VPEP; pfam07589 323848004463 FAD binding domain; Region: FAD_binding_4; pfam01565 323848004464 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 323848004465 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323848004466 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 323848004467 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 323848004468 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 323848004469 Autotransporter beta-domain; Region: Autotransporter; pfam03797 323848004470 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 323848004471 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 323848004472 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 323848004473 Transposase; Region: HTH_Tnp_1; pfam01527 323848004474 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 323848004475 HTH-like domain; Region: HTH_21; pfam13276 323848004476 Integrase core domain; Region: rve; pfam00665 323848004477 Integrase core domain; Region: rve_3; pfam13683 323848004478 Hemerythrin-like domain; Region: Hr-like; cd12108 323848004479 Fe binding site [ion binding]; other site 323848004480 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 323848004481 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323848004482 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 323848004483 Walker A/P-loop; other site 323848004484 ATP binding site [chemical binding]; other site 323848004485 Q-loop/lid; other site 323848004486 ABC transporter signature motif; other site 323848004487 Walker B; other site 323848004488 D-loop; other site 323848004489 H-loop/switch region; other site 323848004490 short chain dehydrogenase; Provisional; Region: PRK06181 323848004491 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 323848004492 putative NAD(P) binding site [chemical binding]; other site 323848004493 active site 323848004494 PAS domain S-box; Region: sensory_box; TIGR00229 323848004495 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 323848004496 putative active site [active] 323848004497 heme pocket [chemical binding]; other site 323848004498 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 323848004499 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 323848004500 putative active site [active] 323848004501 heme pocket [chemical binding]; other site 323848004502 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848004503 dimer interface [polypeptide binding]; other site 323848004504 phosphorylation site [posttranslational modification] 323848004505 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 323848004506 ATP binding site [chemical binding]; other site 323848004507 Mg2+ binding site [ion binding]; other site 323848004508 G-X-G motif; other site 323848004509 Response regulator receiver domain; Region: Response_reg; pfam00072 323848004510 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 323848004511 active site 323848004512 phosphorylation site [posttranslational modification] 323848004513 intermolecular recognition site; other site 323848004514 dimerization interface [polypeptide binding]; other site 323848004515 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 323848004516 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 323848004517 putative active site [active] 323848004518 heme pocket [chemical binding]; other site 323848004519 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323848004520 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848004521 dimer interface [polypeptide binding]; other site 323848004522 phosphorylation site [posttranslational modification] 323848004523 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 323848004524 ATP binding site [chemical binding]; other site 323848004525 Mg2+ binding site [ion binding]; other site 323848004526 G-X-G motif; other site 323848004527 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323848004528 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 323848004529 active site 323848004530 phosphorylation site [posttranslational modification] 323848004531 intermolecular recognition site; other site 323848004532 dimerization interface [polypeptide binding]; other site 323848004533 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 323848004534 PAS fold; Region: PAS_3; pfam08447 323848004535 putative active site [active] 323848004536 heme pocket [chemical binding]; other site 323848004537 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323848004538 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848004539 dimer interface [polypeptide binding]; other site 323848004540 phosphorylation site [posttranslational modification] 323848004541 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 323848004542 ATP binding site [chemical binding]; other site 323848004543 Mg2+ binding site [ion binding]; other site 323848004544 G-X-G motif; other site 323848004545 Response regulator receiver domain; Region: Response_reg; pfam00072 323848004546 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 323848004547 active site 323848004548 phosphorylation site [posttranslational modification] 323848004549 intermolecular recognition site; other site 323848004550 dimerization interface [polypeptide binding]; other site 323848004551 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 323848004552 substrate binding site [chemical binding]; other site 323848004553 zinc-binding site [ion binding]; other site 323848004554 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 323848004555 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323848004556 Fatty acid desaturase; Region: FA_desaturase; pfam00487 323848004557 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 323848004558 putative di-iron ligands [ion binding]; other site 323848004559 Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly...; Region: Peptidase_C19; cl02553 323848004560 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 323848004561 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 323848004562 homodimer interface [polypeptide binding]; other site 323848004563 substrate-cofactor binding pocket; other site 323848004564 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848004565 catalytic residue [active] 323848004566 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 323848004567 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 323848004568 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 323848004569 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 323848004570 [2Fe-2S] cluster binding site [ion binding]; other site 323848004571 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323848004572 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323848004573 metal binding site [ion binding]; metal-binding site 323848004574 active site 323848004575 I-site; other site 323848004576 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 323848004577 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323848004578 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 323848004579 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323848004580 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 323848004581 Walker A/P-loop; other site 323848004582 ATP binding site [chemical binding]; other site 323848004583 Q-loop/lid; other site 323848004584 ABC transporter signature motif; other site 323848004585 Walker B; other site 323848004586 D-loop; other site 323848004587 H-loop/switch region; other site 323848004588 DevC protein; Region: devC; TIGR01185 323848004589 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323848004590 Pyruvate kinase, alpha/beta domain; Region: PK_C; pfam02887 323848004591 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 323848004592 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 323848004593 domain interfaces; other site 323848004594 active site 323848004595 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 323848004596 MgtC family; Region: MgtC; pfam02308 323848004597 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 323848004598 hypothetical protein; Validated; Region: PRK00029 323848004599 Uncharacterized conserved protein [Function unknown]; Region: COG0397 323848004600 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 323848004601 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 323848004602 PRC-barrel domain; Region: PRC; pfam05239 323848004603 putative mechanosensitive channel protein; Provisional; Region: PRK11465 323848004604 Mechanosensitive ion channel; Region: MS_channel; pfam00924 323848004605 hydroperoxidase II; Provisional; Region: katE; PRK11249 323848004606 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 323848004607 tetramer interface [polypeptide binding]; other site 323848004608 heme binding pocket [chemical binding]; other site 323848004609 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 323848004610 domain interactions; other site 323848004611 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 323848004612 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 323848004613 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 323848004614 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 323848004615 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 323848004616 HSP70 interaction site [polypeptide binding]; other site 323848004617 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 323848004618 substrate binding site [polypeptide binding]; other site 323848004619 dimer interface [polypeptide binding]; other site 323848004620 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 323848004621 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 323848004622 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 323848004623 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 323848004624 putative active site [active] 323848004625 catalytic site [active] 323848004626 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 323848004627 putative active site [active] 323848004628 catalytic site [active] 323848004629 Uncharacterized conserved protein [Function unknown]; Region: COG0398 323848004630 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 323848004631 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 323848004632 putative catalytic site [active] 323848004633 putative metal binding site [ion binding]; other site 323848004634 putative phosphate binding site [ion binding]; other site 323848004635 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848004636 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848004637 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848004638 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 323848004639 putative hydrophobic ligand binding site [chemical binding]; other site 323848004640 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 323848004641 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 323848004642 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323848004643 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 323848004644 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 323848004645 motif II; other site 323848004646 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 323848004647 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 323848004648 non-specific DNA binding site [nucleotide binding]; other site 323848004649 salt bridge; other site 323848004650 sequence-specific DNA binding site [nucleotide binding]; other site 323848004651 Predicted membrane protein [Function unknown]; Region: COG3503 323848004652 BssS protein family; Region: BssS; pfam13991 323848004653 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 323848004654 Thioredoxin; Region: Thioredoxin_4; pfam13462 323848004655 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 323848004656 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 323848004657 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 323848004658 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 323848004659 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 323848004660 dihydrodipicolinate synthase; Region: dapA; TIGR00674 323848004661 dimer interface [polypeptide binding]; other site 323848004662 active site 323848004663 catalytic residue [active] 323848004664 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 323848004665 Clp amino terminal domain; Region: Clp_N; pfam02861 323848004666 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848004667 Walker A motif; other site 323848004668 ATP binding site [chemical binding]; other site 323848004669 Walker B motif; other site 323848004670 arginine finger; other site 323848004671 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cl00148 323848004672 primary dimer interface [polypeptide binding]; other site 323848004673 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848004674 Walker A motif; other site 323848004675 ATP binding site [chemical binding]; other site 323848004676 Walker B motif; other site 323848004677 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 323848004678 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 323848004679 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 323848004680 active site 323848004681 FMN binding site [chemical binding]; other site 323848004682 substrate binding site [chemical binding]; other site 323848004683 3Fe-4S cluster binding site [ion binding]; other site 323848004684 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 323848004685 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 323848004686 dimerization interface [polypeptide binding]; other site 323848004687 active site 323848004688 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 323848004689 Acyltransferase family; Region: Acyl_transf_3; pfam01757 323848004690 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 323848004691 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 323848004692 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 323848004693 Glutamate binding site [chemical binding]; other site 323848004694 NAD binding site [chemical binding]; other site 323848004695 catalytic residues [active] 323848004696 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 323848004697 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 323848004698 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 323848004699 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 323848004700 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 323848004701 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 323848004702 catalytic triad [active] 323848004703 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 323848004704 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 323848004705 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848004706 catalytic residue [active] 323848004707 homoserine dehydrogenase; Provisional; Region: PRK06349 323848004708 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 323848004709 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 323848004710 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 323848004711 aminotransferase AlaT; Validated; Region: PRK09265 323848004712 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 323848004713 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848004714 homodimer interface [polypeptide binding]; other site 323848004715 catalytic residue [active] 323848004716 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 323848004717 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 323848004718 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323848004719 Response regulator receiver domain; Region: Response_reg; pfam00072 323848004720 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 323848004721 active site 323848004722 phosphorylation site [posttranslational modification] 323848004723 intermolecular recognition site; other site 323848004724 dimerization interface [polypeptide binding]; other site 323848004725 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 323848004726 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 323848004727 dimerization interface [polypeptide binding]; other site 323848004728 PAS domain S-box; Region: sensory_box; TIGR00229 323848004729 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 323848004730 putative active site [active] 323848004731 heme pocket [chemical binding]; other site 323848004732 PAS fold; Region: PAS_4; pfam08448 323848004733 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 323848004734 putative active site [active] 323848004735 heme pocket [chemical binding]; other site 323848004736 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848004737 dimer interface [polypeptide binding]; other site 323848004738 phosphorylation site [posttranslational modification] 323848004739 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 323848004740 ATP binding site [chemical binding]; other site 323848004741 Mg2+ binding site [ion binding]; other site 323848004742 G-X-G motif; other site 323848004743 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323848004744 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 323848004745 active site 323848004746 phosphorylation site [posttranslational modification] 323848004747 intermolecular recognition site; other site 323848004748 dimerization interface [polypeptide binding]; other site 323848004749 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 323848004750 putative binding surface; other site 323848004751 active site 323848004752 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 323848004753 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 323848004754 putative ligand binding site [chemical binding]; other site 323848004755 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 323848004756 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 323848004757 putative active site [active] 323848004758 Zn binding site [ion binding]; other site 323848004759 HAMP domain; Region: HAMP; pfam00672 323848004760 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323848004761 metal binding site [ion binding]; metal-binding site 323848004762 active site 323848004763 I-site; other site 323848004764 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 323848004765 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 323848004766 active site 323848004767 intersubunit interface [polypeptide binding]; other site 323848004768 catalytic residue [active] 323848004769 chromosome condensation membrane protein; Provisional; Region: PRK14196 323848004770 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 323848004771 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 323848004772 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 323848004773 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 323848004774 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 323848004775 Autotransporter beta-domain; Region: Autotransporter; pfam03797 323848004776 Integrase core domain; Region: rve_3; pfam13683 323848004777 HTH-like domain; Region: HTH_21; pfam13276 323848004778 Integrase core domain; Region: rve; pfam00665 323848004779 Transposase; Region: HTH_Tnp_1; pfam01527 323848004780 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 323848004781 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 323848004782 NodB motif; other site 323848004783 active site 323848004784 catalytic site [active] 323848004785 metal binding site [ion binding]; metal-binding site 323848004786 Predicted flavoprotein [General function prediction only]; Region: COG0431 323848004787 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 323848004788 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 323848004789 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 323848004790 putative NAD(P) binding site [chemical binding]; other site 323848004791 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 323848004792 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 323848004793 putative hydrophobic ligand binding site [chemical binding]; other site 323848004794 protein interface [polypeptide binding]; other site 323848004795 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 323848004796 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323848004797 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 323848004798 binding surface 323848004799 TPR motif; other site 323848004800 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323848004801 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 323848004802 binding surface 323848004803 TPR motif; other site 323848004804 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323848004805 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323848004806 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 323848004807 binding surface 323848004808 TPR motif; other site 323848004809 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323848004810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 323848004811 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 323848004812 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 323848004813 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 323848004814 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 323848004815 RNA binding site [nucleotide binding]; other site 323848004816 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 323848004817 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 323848004818 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 323848004819 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 323848004820 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323848004821 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 323848004822 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 323848004823 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 323848004824 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 323848004825 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 323848004826 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 323848004827 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 323848004828 NlpC/P60 family; Region: NLPC_P60; pfam00877 323848004829 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 323848004830 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323848004831 metal binding site [ion binding]; metal-binding site 323848004832 succinylarginine dihydrolase; Provisional; Region: PRK13281 323848004833 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 323848004834 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 323848004835 ABC1 family; Region: ABC1; cl17513 323848004836 Myb/SANT-like DNA-binding domain; Region: Myb_DNA-bind_3; pfam12776 323848004837 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 323848004838 active site 323848004839 nitrosocyanin; Region: nitroso_cyanin; TIGR03096 323848004840 CsbD-like; Region: CsbD; pfam05532 323848004841 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 323848004842 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 323848004843 active site 323848004844 HIGH motif; other site 323848004845 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 323848004846 active site 323848004847 KMSKS motif; other site 323848004848 PAS fold; Region: PAS_7; pfam12860 323848004849 PAS domain S-box; Region: sensory_box; TIGR00229 323848004850 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 323848004851 putative active site [active] 323848004852 heme pocket [chemical binding]; other site 323848004853 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323848004854 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323848004855 metal binding site [ion binding]; metal-binding site 323848004856 active site 323848004857 I-site; other site 323848004858 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 323848004859 Flagellar regulator YcgR; Region: YcgR; pfam07317 323848004860 PilZ domain; Region: PilZ; pfam07238 323848004861 multicopper oxidase; Provisional; Region: PRK10965 323848004862 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 323848004863 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 323848004864 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 323848004865 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323848004866 Cytochrome c; Region: Cytochrom_C; pfam00034 323848004867 Protein of unknown function (DUF330); Region: DUF330; cl01135 323848004868 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 323848004869 mce related protein; Region: MCE; pfam02470 323848004870 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 323848004871 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323848004872 Walker A/P-loop; other site 323848004873 ATP binding site [chemical binding]; other site 323848004874 Q-loop/lid; other site 323848004875 ABC transporter signature motif; other site 323848004876 Walker B; other site 323848004877 D-loop; other site 323848004878 H-loop/switch region; other site 323848004879 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 323848004880 Permease; Region: Permease; pfam02405 323848004881 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 323848004882 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 323848004883 Ion channel; Region: Ion_trans_2; pfam07885 323848004884 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 323848004885 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 323848004886 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 323848004887 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 323848004888 active site 323848004889 catalytic site [active] 323848004890 substrate binding site [chemical binding]; other site 323848004891 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 323848004892 RNA/DNA hybrid binding site [nucleotide binding]; other site 323848004893 active site 323848004894 Methyltransferase domain; Region: Methyltransf_11; pfam08241 323848004895 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 323848004896 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 323848004897 putative active site [active] 323848004898 transaldolase; Provisional; Region: PRK03903 323848004899 catalytic residue [active] 323848004900 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 323848004901 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 323848004902 DoxX; Region: DoxX; pfam07681 323848004903 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 323848004904 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 323848004905 putative active site [active] 323848004906 Predicted transcriptional regulator [Transcription]; Region: COG2345 323848004907 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 323848004908 putative DNA binding site [nucleotide binding]; other site 323848004909 putative Zn2+ binding site [ion binding]; other site 323848004910 Transcriptional regulator PadR-like family; Region: PadR; cl17335 323848004911 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 323848004912 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 323848004913 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 323848004914 Sodium Bile acid symporter family; Region: SBF; pfam01758 323848004915 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323848004916 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 323848004917 S-adenosylmethionine binding site [chemical binding]; other site 323848004918 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848004919 dimer interface [polypeptide binding]; other site 323848004920 phosphorylation site [posttranslational modification] 323848004921 Transposase; Region: HTH_Tnp_1; pfam01527 323848004922 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 323848004923 Nitrogen regulatory protein P-II; Region: P-II; smart00938 323848004924 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 323848004925 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 323848004926 HlyD family secretion protein; Region: HlyD_3; pfam13437 323848004927 Outer membrane efflux protein; Region: OEP; pfam02321 323848004928 Outer membrane efflux protein; Region: OEP; pfam02321 323848004929 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848004930 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848004931 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848004932 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848004933 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848004934 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848004935 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 323848004936 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 323848004937 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323848004938 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 323848004939 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 323848004940 motif II; other site 323848004941 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 323848004942 BON domain; Region: BON; pfam04972 323848004943 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 323848004944 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 323848004945 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 323848004946 core domain interface [polypeptide binding]; other site 323848004947 delta subunit interface [polypeptide binding]; other site 323848004948 epsilon subunit interface [polypeptide binding]; other site 323848004949 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 323848004950 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 323848004951 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 323848004952 Walker A motif; other site 323848004953 ATP binding site [chemical binding]; other site 323848004954 Walker B motif; other site 323848004955 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 323848004956 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 323848004957 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 323848004958 alternate F1F0 ATPase, F0 subunit C; Region: alt_F1F0_F0_C; TIGR03322 323848004959 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 323848004960 alternate F1F0 ATPase, F0 subunit A; Region: altF1_A; TIGR03306 323848004961 F1/F0 ATPase, Methanosarcina type, subunit 2; Region: F1F0_chp_2; TIGR03165 323848004962 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 323848004963 F0F1 ATP synthase subunit epsilon; Validated; Region: PRK06228 323848004964 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 323848004965 gamma subunit interface [polypeptide binding]; other site 323848004966 epsilon subunit interface [polypeptide binding]; other site 323848004967 LBP interface [polypeptide binding]; other site 323848004968 alternate F1F0 ATPase, F1 subunit beta; Region: alt_F1F0_F1_bet; TIGR03305 323848004969 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 323848004970 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 323848004971 alpha subunit interaction interface [polypeptide binding]; other site 323848004972 Walker A motif; other site 323848004973 ATP binding site [chemical binding]; other site 323848004974 Walker B motif; other site 323848004975 inhibitor binding site; inhibition site 323848004976 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 323848004977 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 323848004978 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 323848004979 Beta-Casp domain; Region: Beta-Casp; pfam10996 323848004980 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 323848004981 GAF domain; Region: GAF; cl17456 323848004982 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323848004983 Zn2+ binding site [ion binding]; other site 323848004984 Mg2+ binding site [ion binding]; other site 323848004985 HupF/HypC family; Region: HupF_HypC; pfam01455 323848004986 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 323848004987 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 323848004988 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 323848004989 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 323848004990 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 323848004991 Acylphosphatase; Region: Acylphosphatase; pfam00708 323848004992 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 323848004993 HypF finger; Region: zf-HYPF; pfam07503 323848004994 HypF finger; Region: zf-HYPF; pfam07503 323848004995 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 323848004996 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 323848004997 dimerization interface [polypeptide binding]; other site 323848004998 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 323848004999 ATP binding site [chemical binding]; other site 323848005000 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 323848005001 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 323848005002 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 323848005003 SLBB domain; Region: SLBB; pfam10531 323848005004 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 323848005005 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 323848005006 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 323848005007 catalytic loop [active] 323848005008 iron binding site [ion binding]; other site 323848005009 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 323848005010 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 323848005011 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 323848005012 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 323848005013 Endopeptidases that belong to the bidirectional NAD-linked hydrogenase group. This group of endopeptidases are highly specific carboxyl-terminal protease (HoxW protease) which releases a 24-amino-acid peptide from HoxH prior to progression of subunit...; Region: H2MP_NAD-link-bidir; cd06066 323848005014 nickel binding site [ion binding]; other site 323848005015 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 323848005016 CoA binding domain; Region: CoA_binding_2; pfam13380 323848005017 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 323848005018 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 323848005019 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 323848005020 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848005021 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848005022 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848005023 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848005024 PEP-CTERM motif; Region: VPEP; pfam07589 323848005025 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 323848005026 Ligand Binding Site [chemical binding]; other site 323848005027 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 323848005028 Ligand Binding Site [chemical binding]; other site 323848005029 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 323848005030 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 323848005031 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 323848005032 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 323848005033 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 323848005034 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 323848005035 dimerization interface [polypeptide binding]; other site 323848005036 putative DNA binding site [nucleotide binding]; other site 323848005037 putative Zn2+ binding site [ion binding]; other site 323848005038 Predicted transporter component [General function prediction only]; Region: COG2391 323848005039 Sulphur transport; Region: Sulf_transp; pfam04143 323848005040 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 323848005041 Predicted transporter component [General function prediction only]; Region: COG2391 323848005042 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 323848005043 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848005044 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848005045 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848005046 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 323848005047 proposed catalytic triad [active] 323848005048 active site nucleophile [active] 323848005049 Ion transport protein; Region: Ion_trans; pfam00520 323848005050 Ion channel; Region: Ion_trans_2; pfam07885 323848005051 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 323848005052 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 323848005053 Helix-turn-helix domain; Region: HTH_38; pfam13936 323848005054 Homeodomain-like domain; Region: HTH_32; pfam13565 323848005055 Integrase core domain; Region: rve; pfam00665 323848005056 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 323848005057 Integrase core domain; Region: rve; pfam00665 323848005058 Integrase core domain; Region: rve_3; pfam13683 323848005059 Transposase; Region: HTH_Tnp_1; pfam01527 323848005060 Integrase core domain; Region: rve; pfam00665 323848005061 Integrase core domain; Region: rve_3; pfam13683 323848005062 Restriction endonuclease; Region: Mrr_cat; pfam04471 323848005063 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 323848005064 active site 323848005065 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 323848005066 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 323848005067 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 323848005068 Chain length determinant protein; Region: Wzz; cl15801 323848005069 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 323848005070 active site 323848005071 catalytic residues [active] 323848005072 DNA binding site [nucleotide binding] 323848005073 Int/Topo IB signature motif; other site 323848005074 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 323848005075 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 323848005076 putative active site [active] 323848005077 metal binding site [ion binding]; metal-binding site 323848005078 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 323848005079 Phosphotransferase enzyme family; Region: APH; pfam01636 323848005080 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 323848005081 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 323848005082 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 323848005083 motif II; other site 323848005084 MatE; Region: MatE; pfam01554 323848005085 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 323848005086 PAS domain; Region: PAS_9; pfam13426 323848005087 putative active site [active] 323848005088 heme pocket [chemical binding]; other site 323848005089 PAS fold; Region: PAS_4; pfam08448 323848005090 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 323848005091 putative active site [active] 323848005092 heme pocket [chemical binding]; other site 323848005093 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323848005094 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323848005095 metal binding site [ion binding]; metal-binding site 323848005096 active site 323848005097 I-site; other site 323848005098 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 323848005099 Predicted metalloprotease [General function prediction only]; Region: COG2321 323848005100 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 323848005101 Protein of unknown function (DUF2591); Region: DUF2591; pfam10765 323848005102 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 323848005103 PLD-like domain; Region: PLDc_2; pfam13091 323848005104 putative active site [active] 323848005105 catalytic site [active] 323848005106 PLD-like domain; Region: PLDc_2; pfam13091 323848005107 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 323848005108 putative active site [active] 323848005109 catalytic site [active] 323848005110 Uncharacterized conserved protein [Function unknown]; Region: COG3189 323848005111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 323848005112 CreA protein; Region: CreA; pfam05981 323848005113 CHRD domain; Region: CHRD; pfam07452 323848005114 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 323848005115 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 323848005116 active site 323848005117 FMN binding site [chemical binding]; other site 323848005118 substrate binding site [chemical binding]; other site 323848005119 homotetramer interface [polypeptide binding]; other site 323848005120 catalytic residue [active] 323848005121 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323848005122 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323848005123 Cytochrome c; Region: Cytochrom_C; pfam00034 323848005124 Cytochrome c; Region: Cytochrom_C; cl11414 323848005125 Cytochrome c; Region: Cytochrom_C; cl11414 323848005126 flagellar assembly protein H; Validated; Region: fliH; PRK06032 323848005127 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 323848005128 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 323848005129 ATP-grasp domain; Region: ATP-grasp_4; cl17255 323848005130 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 323848005131 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 323848005132 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 323848005133 putative dimer interface [polypeptide binding]; other site 323848005134 N-terminal domain interface [polypeptide binding]; other site 323848005135 putative substrate binding pocket (H-site) [chemical binding]; other site 323848005136 DDE domain; Region: DDE_Tnp_IS240; pfam13610 323848005137 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 323848005138 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323848005139 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323848005140 HlyD family secretion protein; Region: HlyD_3; pfam13437 323848005141 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 323848005142 Predicted membrane protein [Function unknown]; Region: COG4267 323848005143 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_3; cd03813 323848005144 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323848005145 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 323848005146 Tetratricopeptide repeat; Region: TPR_15; pfam13429 323848005147 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 323848005148 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 323848005149 putative active site [active] 323848005150 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 323848005151 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 323848005152 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 323848005153 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 323848005154 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323848005155 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 323848005156 substrate binding site [chemical binding]; other site 323848005157 dimerization interface [polypeptide binding]; other site 323848005158 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 323848005159 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323848005160 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 323848005161 Walker A/P-loop; other site 323848005162 ATP binding site [chemical binding]; other site 323848005163 Q-loop/lid; other site 323848005164 ABC transporter signature motif; other site 323848005165 Walker B; other site 323848005166 D-loop; other site 323848005167 H-loop/switch region; other site 323848005168 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 323848005169 L-aspartate oxidase; Provisional; Region: PRK09077 323848005170 L-aspartate oxidase; Provisional; Region: PRK06175 323848005171 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 323848005172 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 323848005173 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 323848005174 dimerization interface [polypeptide binding]; other site 323848005175 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 323848005176 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323848005177 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 323848005178 DNA binding residues [nucleotide binding] 323848005179 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 323848005180 anti-sigma E factor; Provisional; Region: rseB; PRK09455 323848005181 MucB/RseB family; Region: MucB_RseB; pfam03888 323848005182 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 323848005183 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 323848005184 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 323848005185 protein binding site [polypeptide binding]; other site 323848005186 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 323848005187 protein binding site [polypeptide binding]; other site 323848005188 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 323848005189 GTP-binding protein LepA; Provisional; Region: PRK05433 323848005190 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 323848005191 G1 box; other site 323848005192 putative GEF interaction site [polypeptide binding]; other site 323848005193 GTP/Mg2+ binding site [chemical binding]; other site 323848005194 Switch I region; other site 323848005195 G2 box; other site 323848005196 G3 box; other site 323848005197 Switch II region; other site 323848005198 G4 box; other site 323848005199 G5 box; other site 323848005200 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 323848005201 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 323848005202 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 323848005203 signal peptidase I; Provisional; Region: PRK10861 323848005204 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 323848005205 Catalytic site [active] 323848005206 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 323848005207 ribonuclease III; Reviewed; Region: rnc; PRK00102 323848005208 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 323848005209 dimerization interface [polypeptide binding]; other site 323848005210 active site 323848005211 metal binding site [ion binding]; metal-binding site 323848005212 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 323848005213 dsRNA binding site [nucleotide binding]; other site 323848005214 GTPase Era; Reviewed; Region: era; PRK00089 323848005215 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 323848005216 G1 box; other site 323848005217 GTP/Mg2+ binding site [chemical binding]; other site 323848005218 Switch I region; other site 323848005219 G2 box; other site 323848005220 Switch II region; other site 323848005221 G3 box; other site 323848005222 G4 box; other site 323848005223 G5 box; other site 323848005224 KH domain; Region: KH_2; pfam07650 323848005225 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 323848005226 Recombination protein O N terminal; Region: RecO_N; pfam11967 323848005227 Recombination protein O C terminal; Region: RecO_C; pfam02565 323848005228 Domain of unknown function (DUF202); Region: DUF202; pfam02656 323848005229 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 323848005230 active site 323848005231 hydrophilic channel; other site 323848005232 dimerization interface [polypeptide binding]; other site 323848005233 catalytic residues [active] 323848005234 active site lid [active] 323848005235 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 323848005236 beta-hexosaminidase; Provisional; Region: PRK05337 323848005237 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 323848005238 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 323848005239 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 323848005240 putative dimer interface [polypeptide binding]; other site 323848005241 Uncharacterized conserved protein [Function unknown]; Region: COG5316 323848005242 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 323848005243 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 323848005244 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 323848005245 Ligand binding site; other site 323848005246 Putative Catalytic site; other site 323848005247 DXD motif; other site 323848005248 GtrA-like protein; Region: GtrA; pfam04138 323848005249 Predicted membrane protein [Function unknown]; Region: COG2246 323848005250 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 323848005251 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 323848005252 Predicted phosphohydrolase [General function prediction only]; Region: COG1768 323848005253 putative exosortase-associated protein, TIGR04073 family; Region: exo_TIGR04073 323848005254 Phosphotransferase enzyme family; Region: APH; pfam01636 323848005255 Ecdysteroid kinase; Region: EcKinase; cl17738 323848005256 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 323848005257 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 323848005258 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 323848005259 catalytic residues [active] 323848005260 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 323848005261 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 323848005262 G1 box; other site 323848005263 putative GEF interaction site [polypeptide binding]; other site 323848005264 GTP/Mg2+ binding site [chemical binding]; other site 323848005265 Switch I region; other site 323848005266 G2 box; other site 323848005267 G3 box; other site 323848005268 Switch II region; other site 323848005269 G4 box; other site 323848005270 G5 box; other site 323848005271 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 323848005272 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 323848005273 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 323848005274 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 323848005275 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 323848005276 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 323848005277 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 323848005278 ligand binding site [chemical binding]; other site 323848005279 flexible hinge region; other site 323848005280 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 323848005281 putative switch regulator; other site 323848005282 non-specific DNA interactions [nucleotide binding]; other site 323848005283 DNA binding site [nucleotide binding] 323848005284 sequence specific DNA binding site [nucleotide binding]; other site 323848005285 putative cAMP binding site [chemical binding]; other site 323848005286 Rrf2 family protein; Region: rrf2_super; TIGR00738 323848005287 Transcriptional regulator; Region: Rrf2; pfam02082 323848005288 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 323848005289 Subunit III/VIIa interface [polypeptide binding]; other site 323848005290 Phospholipid binding site [chemical binding]; other site 323848005291 Subunit I/III interface [polypeptide binding]; other site 323848005292 Subunit III/VIb interface [polypeptide binding]; other site 323848005293 Subunit III/VIa interface; other site 323848005294 Subunit III/Vb interface [polypeptide binding]; other site 323848005295 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 323848005296 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 323848005297 Subunit I/III interface [polypeptide binding]; other site 323848005298 D-pathway; other site 323848005299 Subunit I/VIIc interface [polypeptide binding]; other site 323848005300 Subunit I/IV interface [polypeptide binding]; other site 323848005301 Subunit I/II interface [polypeptide binding]; other site 323848005302 Low-spin heme (heme a) binding site [chemical binding]; other site 323848005303 Subunit I/VIIa interface [polypeptide binding]; other site 323848005304 Subunit I/VIa interface [polypeptide binding]; other site 323848005305 Dimer interface; other site 323848005306 Putative water exit pathway; other site 323848005307 Binuclear center (heme a3/CuB) [ion binding]; other site 323848005308 K-pathway; other site 323848005309 Subunit I/Vb interface [polypeptide binding]; other site 323848005310 Putative proton exit pathway; other site 323848005311 Subunit I/VIb interface; other site 323848005312 Subunit I/VIc interface [polypeptide binding]; other site 323848005313 Electron transfer pathway; other site 323848005314 Subunit I/VIIIb interface [polypeptide binding]; other site 323848005315 Subunit I/VIIb interface [polypeptide binding]; other site 323848005316 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 323848005317 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 323848005318 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 323848005319 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323848005320 Cytochrome c; Region: Cytochrom_C; pfam00034 323848005321 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323848005322 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323848005323 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 323848005324 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 323848005325 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 323848005326 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 323848005327 putative active site [active] 323848005328 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323848005329 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 323848005330 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 323848005331 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 323848005332 putative active site [active] 323848005333 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 323848005334 substrate binding site [chemical binding]; other site 323848005335 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 323848005336 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 323848005337 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 323848005338 PAS domain; Region: PAS_9; pfam13426 323848005339 putative active site [active] 323848005340 heme pocket [chemical binding]; other site 323848005341 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 323848005342 hydrophobic ligand binding site; other site 323848005343 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 323848005344 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 323848005345 active site 323848005346 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 323848005347 active site 323848005348 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 323848005349 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 323848005350 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 323848005351 putative active site [active] 323848005352 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 323848005353 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 323848005354 substrate binding site [chemical binding]; other site 323848005355 ATP binding site [chemical binding]; other site 323848005356 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 323848005357 active site 323848005358 nucleotide binding site [chemical binding]; other site 323848005359 HIGH motif; other site 323848005360 KMSKS motif; other site 323848005361 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 323848005362 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 323848005363 active site 323848005364 motif I; other site 323848005365 motif II; other site 323848005366 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 323848005367 classical (c) SDRs; Region: SDR_c; cd05233 323848005368 NAD(P) binding site [chemical binding]; other site 323848005369 active site 323848005370 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 323848005371 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 323848005372 putative ADP-binding pocket [chemical binding]; other site 323848005373 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 323848005374 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 323848005375 dimer interface [polypeptide binding]; other site 323848005376 active site 323848005377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 323848005378 Family of unknown function (DUF490); Region: DUF490; pfam04357 323848005379 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 323848005380 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323848005381 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 323848005382 Surface antigen; Region: Bac_surface_Ag; pfam01103 323848005383 FtsH Extracellular; Region: FtsH_ext; pfam06480 323848005384 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 323848005385 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848005386 Walker A motif; other site 323848005387 ATP binding site [chemical binding]; other site 323848005388 Walker B motif; other site 323848005389 arginine finger; other site 323848005390 Peptidase family M41; Region: Peptidase_M41; pfam01434 323848005391 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 323848005392 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 323848005393 ATP binding site [chemical binding]; other site 323848005394 Mg++ binding site [ion binding]; other site 323848005395 motif III; other site 323848005396 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 323848005397 nucleotide binding region [chemical binding]; other site 323848005398 ATP-binding site [chemical binding]; other site 323848005399 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 323848005400 apolar tunnel; other site 323848005401 heme binding site [chemical binding]; other site 323848005402 dimerization interface [polypeptide binding]; other site 323848005403 Predicted membrane protein [Function unknown]; Region: COG5393 323848005404 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 323848005405 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 323848005406 catalytic triad [active] 323848005407 DNA repair protein RadA; Provisional; Region: PRK11823 323848005408 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 323848005409 Walker A motif/ATP binding site; other site 323848005410 ATP binding site [chemical binding]; other site 323848005411 Walker B motif; other site 323848005412 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 323848005413 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 323848005414 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 323848005415 active site 323848005416 FMN binding site [chemical binding]; other site 323848005417 substrate binding site [chemical binding]; other site 323848005418 3Fe-4S cluster binding site [ion binding]; other site 323848005419 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 323848005420 Transmembrane secretion effector; Region: MFS_3; pfam05977 323848005421 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 323848005422 putative substrate translocation pore; other site 323848005423 Pirin-related protein [General function prediction only]; Region: COG1741 323848005424 Pirin; Region: Pirin; pfam02678 323848005425 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 323848005426 TilS substrate binding domain; Region: TilS; pfam09179 323848005427 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 323848005428 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 323848005429 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 323848005430 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 323848005431 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323848005432 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323848005433 ABC transporter; Region: ABC_tran_2; pfam12848 323848005434 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323848005435 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 323848005436 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 323848005437 amidase catalytic site [active] 323848005438 Zn binding residues [ion binding]; other site 323848005439 substrate binding site [chemical binding]; other site 323848005440 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 323848005441 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 323848005442 substrate binding pocket [chemical binding]; other site 323848005443 chain length determination region; other site 323848005444 substrate-Mg2+ binding site; other site 323848005445 catalytic residues [active] 323848005446 aspartate-rich region 1; other site 323848005447 active site lid residues [active] 323848005448 aspartate-rich region 2; other site 323848005449 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 323848005450 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 323848005451 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 323848005452 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 323848005453 GTP1/OBG; Region: GTP1_OBG; pfam01018 323848005454 Obg GTPase; Region: Obg; cd01898 323848005455 G1 box; other site 323848005456 GTP/Mg2+ binding site [chemical binding]; other site 323848005457 Switch I region; other site 323848005458 G2 box; other site 323848005459 G3 box; other site 323848005460 Switch II region; other site 323848005461 G4 box; other site 323848005462 G5 box; other site 323848005463 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 323848005464 Protein of unknown function, DUF393; Region: DUF393; pfam04134 323848005465 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 323848005466 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 323848005467 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 323848005468 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 323848005469 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323848005470 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 323848005471 Walker A/P-loop; other site 323848005472 ATP binding site [chemical binding]; other site 323848005473 Q-loop/lid; other site 323848005474 ABC transporter signature motif; other site 323848005475 Walker B; other site 323848005476 D-loop; other site 323848005477 H-loop/switch region; other site 323848005478 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 323848005479 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 323848005480 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 323848005481 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 323848005482 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 323848005483 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 323848005484 N-terminal plug; other site 323848005485 ligand-binding site [chemical binding]; other site 323848005486 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 323848005487 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 323848005488 substrate binding pocket [chemical binding]; other site 323848005489 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323848005490 Condensation domain; Region: Condensation; pfam00668 323848005491 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 323848005492 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 323848005493 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 323848005494 acyl-activating enzyme (AAE) consensus motif; other site 323848005495 AMP binding site [chemical binding]; other site 323848005496 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 323848005497 Condensation domain; Region: Condensation; pfam00668 323848005498 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 323848005499 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 323848005500 Condensation domain; Region: Condensation; pfam00668 323848005501 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 323848005502 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 323848005503 acyl-activating enzyme (AAE) consensus motif; other site 323848005504 AMP binding site [chemical binding]; other site 323848005505 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 323848005506 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 323848005507 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 323848005508 acyl-activating enzyme (AAE) consensus motif; other site 323848005509 AMP binding site [chemical binding]; other site 323848005510 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 323848005511 Condensation domain; Region: Condensation; pfam00668 323848005512 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 323848005513 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 323848005514 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 323848005515 acyl-activating enzyme (AAE) consensus motif; other site 323848005516 AMP binding site [chemical binding]; other site 323848005517 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 323848005518 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 323848005519 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 323848005520 active site 323848005521 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 323848005522 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 323848005523 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 323848005524 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 323848005525 putative NADP binding site [chemical binding]; other site 323848005526 active site 323848005527 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 323848005528 acyl-CoA synthetase; Validated; Region: PRK05850 323848005529 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 323848005530 acyl-activating enzyme (AAE) consensus motif; other site 323848005531 active site 323848005532 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 323848005533 Condensation domain; Region: Condensation; pfam00668 323848005534 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 323848005535 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 323848005536 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 323848005537 acyl-activating enzyme (AAE) consensus motif; other site 323848005538 AMP binding site [chemical binding]; other site 323848005539 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 323848005540 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 323848005541 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 323848005542 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 323848005543 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 323848005544 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 323848005545 Helix-turn-helix domain; Region: HTH_38; pfam13936 323848005546 Homeodomain-like domain; Region: HTH_32; pfam13565 323848005547 Integrase core domain; Region: rve; pfam00665 323848005548 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 323848005549 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323848005550 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 323848005551 DNA binding residues [nucleotide binding] 323848005552 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 323848005553 HlyD family secretion protein; Region: HlyD_3; pfam13437 323848005554 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323848005555 Protein export membrane protein; Region: SecD_SecF; cl14618 323848005556 gamma-glutamyl kinase; Provisional; Region: PRK05429 323848005557 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 323848005558 nucleotide binding site [chemical binding]; other site 323848005559 homotetrameric interface [polypeptide binding]; other site 323848005560 putative phosphate binding site [ion binding]; other site 323848005561 putative allosteric binding site; other site 323848005562 PUA domain; Region: PUA; pfam01472 323848005563 CNP1-like family; Region: CNP1; pfam08750 323848005564 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 323848005565 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 323848005566 Cysteine-rich domain; Region: CCG; pfam02754 323848005567 Rubrerythrin [Energy production and conversion]; Region: COG1592 323848005568 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 323848005569 binuclear metal center [ion binding]; other site 323848005570 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 323848005571 glycerate dehydrogenase; Provisional; Region: PRK06487 323848005572 putative ligand binding site [chemical binding]; other site 323848005573 putative NAD binding site [chemical binding]; other site 323848005574 catalytic site [active] 323848005575 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 323848005576 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 323848005577 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 323848005578 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 323848005579 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848005580 homodimer interface [polypeptide binding]; other site 323848005581 catalytic residue [active] 323848005582 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 323848005583 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 323848005584 trimer interface [polypeptide binding]; other site 323848005585 active site 323848005586 substrate binding site [chemical binding]; other site 323848005587 CoA binding site [chemical binding]; other site 323848005588 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 323848005589 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 323848005590 metal binding site [ion binding]; metal-binding site 323848005591 dimer interface [polypeptide binding]; other site 323848005592 HemK family putative methylases; Region: hemK_fam; TIGR00536 323848005593 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 323848005594 S-adenosylmethionine binding site [chemical binding]; other site 323848005595 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 323848005596 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 323848005597 RNA binding surface [nucleotide binding]; other site 323848005598 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 323848005599 probable active site [active] 323848005600 recombination protein RecR; Reviewed; Region: recR; PRK00076 323848005601 RecR protein; Region: RecR; pfam02132 323848005602 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 323848005603 putative active site [active] 323848005604 putative metal-binding site [ion binding]; other site 323848005605 tetramer interface [polypeptide binding]; other site 323848005606 hypothetical protein; Validated; Region: PRK00153 323848005607 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14969 323848005608 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848005609 Walker A motif; other site 323848005610 ATP binding site [chemical binding]; other site 323848005611 Walker B motif; other site 323848005612 arginine finger; other site 323848005613 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 323848005614 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 323848005615 Response regulator receiver domain; Region: Response_reg; pfam00072 323848005616 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 323848005617 active site 323848005618 phosphorylation site [posttranslational modification] 323848005619 intermolecular recognition site; other site 323848005620 dimerization interface [polypeptide binding]; other site 323848005621 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323848005622 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323848005623 metal binding site [ion binding]; metal-binding site 323848005624 active site 323848005625 I-site; other site 323848005626 Response regulator receiver domain; Region: Response_reg; pfam00072 323848005627 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 323848005628 active site 323848005629 phosphorylation site [posttranslational modification] 323848005630 intermolecular recognition site; other site 323848005631 dimerization interface [polypeptide binding]; other site 323848005632 PAS domain; Region: PAS_9; pfam13426 323848005633 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 323848005634 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 323848005635 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 323848005636 RNA binding site [nucleotide binding]; other site 323848005637 active site 323848005638 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 323848005639 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 323848005640 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 323848005641 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 323848005642 translation initiation factor IF-2; Region: IF-2; TIGR00487 323848005643 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 323848005644 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 323848005645 G1 box; other site 323848005646 putative GEF interaction site [polypeptide binding]; other site 323848005647 GTP/Mg2+ binding site [chemical binding]; other site 323848005648 Switch I region; other site 323848005649 G2 box; other site 323848005650 G3 box; other site 323848005651 Switch II region; other site 323848005652 G4 box; other site 323848005653 G5 box; other site 323848005654 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 323848005655 Translation-initiation factor 2; Region: IF-2; pfam11987 323848005656 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 323848005657 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 323848005658 NusA N-terminal domain; Region: NusA_N; pfam08529 323848005659 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 323848005660 RNA binding site [nucleotide binding]; other site 323848005661 homodimer interface [polypeptide binding]; other site 323848005662 NusA-like KH domain; Region: KH_5; pfam13184 323848005663 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 323848005664 G-X-X-G motif; other site 323848005665 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 323848005666 ribosome maturation protein RimP; Reviewed; Region: PRK00092 323848005667 Sm and related proteins; Region: Sm_like; cl00259 323848005668 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 323848005669 putative oligomer interface [polypeptide binding]; other site 323848005670 putative RNA binding site [nucleotide binding]; other site 323848005671 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 323848005672 acyl-activating enzyme (AAE) consensus motif; other site 323848005673 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 323848005674 active site 323848005675 CoA binding site [chemical binding]; other site 323848005676 AMP binding site [chemical binding]; other site 323848005677 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 323848005678 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 323848005679 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 323848005680 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 323848005681 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 323848005682 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 323848005683 Glucokinase; Region: Glucokinase; pfam02685 323848005684 glucokinase, proteobacterial type; Region: glk; TIGR00749 323848005685 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 323848005686 RmuC family; Region: RmuC; pfam02646 323848005687 Protein of unknown function, DUF488; Region: DUF488; pfam04343 323848005688 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 323848005689 TPR motif; other site 323848005690 binding surface 323848005691 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 323848005692 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 323848005693 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 323848005694 active site 323848005695 HIGH motif; other site 323848005696 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 323848005697 KMSKS motif; other site 323848005698 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 323848005699 tRNA binding surface [nucleotide binding]; other site 323848005700 anticodon binding site; other site 323848005701 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 323848005702 binding surface 323848005703 TPR motif; other site 323848005704 TPR repeat; Region: TPR_11; pfam13414 323848005705 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 323848005706 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323848005707 binding surface 323848005708 TPR motif; other site 323848005709 SnoaL-like domain; Region: SnoaL_3; pfam13474 323848005710 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 323848005711 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 323848005712 substrate binding site [chemical binding]; other site 323848005713 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 323848005714 substrate binding site [chemical binding]; other site 323848005715 Peptidase family M48; Region: Peptidase_M48; pfam01435 323848005716 Peptidase S8 family domain, uncharacterized subfamily 15; Region: Peptidases_S8_15; cd07498 323848005717 active site 323848005718 catalytic triad [active] 323848005719 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 323848005720 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 323848005721 active site 323848005722 catalytic residues [active] 323848005723 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 323848005724 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 323848005725 GspL periplasmic domain; Region: GspL_C; cl14909 323848005726 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 323848005727 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 323848005728 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 323848005729 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 323848005730 Type II transport protein GspH; Region: GspH; pfam12019 323848005731 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 323848005732 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 323848005733 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 323848005734 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 323848005735 proposed catalytic triad [active] 323848005736 active site nucleophile [active] 323848005737 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 323848005738 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 323848005739 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 323848005740 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 323848005741 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 323848005742 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 323848005743 type II secretion system protein E; Region: type_II_gspE; TIGR02533 323848005744 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 323848005745 Walker A motif; other site 323848005746 ATP binding site [chemical binding]; other site 323848005747 Walker B motif; other site 323848005748 type II secretion system protein F; Region: GspF; TIGR02120 323848005749 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323848005750 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323848005751 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 323848005752 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 323848005753 homodimer interface [polypeptide binding]; other site 323848005754 substrate-cofactor binding pocket; other site 323848005755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848005756 catalytic residue [active] 323848005757 amidophosphoribosyltransferase; Provisional; Region: PRK09246 323848005758 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 323848005759 active site 323848005760 tetramer interface [polypeptide binding]; other site 323848005761 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323848005762 active site 323848005763 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 323848005764 Colicin V production protein; Region: Colicin_V; pfam02674 323848005765 Sporulation related domain; Region: SPOR; pfam05036 323848005766 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 323848005767 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323848005768 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323848005769 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 323848005770 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 323848005771 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 323848005772 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 323848005773 substrate binding site [chemical binding]; other site 323848005774 active site 323848005775 catalytic residues [active] 323848005776 heterodimer interface [polypeptide binding]; other site 323848005777 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 323848005778 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 323848005779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848005780 catalytic residue [active] 323848005781 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 323848005782 active site 323848005783 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 323848005784 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 323848005785 dimerization interface 3.5A [polypeptide binding]; other site 323848005786 active site 323848005787 FimV N-terminal domain; Region: FimV_core; TIGR03505 323848005788 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 323848005789 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 323848005790 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 323848005791 tartrate dehydrogenase; Region: TTC; TIGR02089 323848005792 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 323848005793 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 323848005794 substrate binding site [chemical binding]; other site 323848005795 Entericidin EcnA/B family; Region: Entericidin; cl02322 323848005796 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 323848005797 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 323848005798 substrate binding site [chemical binding]; other site 323848005799 ligand binding site [chemical binding]; other site 323848005800 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 323848005801 putative substrate translocation pore; other site 323848005802 PRC-barrel domain; Region: PRC; pfam05239 323848005803 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 323848005804 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 323848005805 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 323848005806 Methyltransferase domain; Region: Methyltransf_25; pfam13649 323848005807 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 323848005808 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 323848005809 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 323848005810 Uncharacterized conserved protein [Function unknown]; Region: COG4121 323848005811 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323848005812 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323848005813 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 323848005814 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 323848005815 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 323848005816 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 323848005817 active site 323848005818 HIGH motif; other site 323848005819 KMSKS motif; other site 323848005820 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 323848005821 tRNA binding surface [nucleotide binding]; other site 323848005822 anticodon binding site; other site 323848005823 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 323848005824 dimer interface [polypeptide binding]; other site 323848005825 putative tRNA-binding site [nucleotide binding]; other site 323848005826 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 323848005827 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 323848005828 putative NAD(P) binding site [chemical binding]; other site 323848005829 putative substrate binding site [chemical binding]; other site 323848005830 catalytic Zn binding site [ion binding]; other site 323848005831 structural Zn binding site [ion binding]; other site 323848005832 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 323848005833 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 323848005834 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 323848005835 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 323848005836 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 323848005837 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 323848005838 dimer interface [polypeptide binding]; other site 323848005839 active site 323848005840 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 323848005841 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 323848005842 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 323848005843 aspartate kinase; Reviewed; Region: PRK06635 323848005844 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 323848005845 putative nucleotide binding site [chemical binding]; other site 323848005846 putative catalytic residues [active] 323848005847 putative Mg ion binding site [ion binding]; other site 323848005848 putative aspartate binding site [chemical binding]; other site 323848005849 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 323848005850 putative allosteric regulatory site; other site 323848005851 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 323848005852 putative allosteric regulatory residue; other site 323848005853 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 323848005854 non-specific DNA binding site [nucleotide binding]; other site 323848005855 salt bridge; other site 323848005856 sequence-specific DNA binding site [nucleotide binding]; other site 323848005857 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 323848005858 FeS/SAM binding site; other site 323848005859 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 323848005860 active site 323848005861 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 323848005862 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 323848005863 catalytic triad [active] 323848005864 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 323848005865 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 323848005866 putative active site [active] 323848005867 PhoH-like protein; Region: PhoH; pfam02562 323848005868 replicative DNA helicase; Region: DnaB; TIGR00665 323848005869 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 323848005870 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 323848005871 Walker A motif; other site 323848005872 ATP binding site [chemical binding]; other site 323848005873 Walker B motif; other site 323848005874 DNA binding loops [nucleotide binding] 323848005875 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 323848005876 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 323848005877 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 323848005878 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 323848005879 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 323848005880 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 323848005881 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 323848005882 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 323848005883 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 323848005884 ribonuclease R; Region: RNase_R; TIGR02063 323848005885 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 323848005886 RNB domain; Region: RNB; pfam00773 323848005887 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 323848005888 RNA binding site [nucleotide binding]; other site 323848005889 N-acyl amino acid synthase, PEP-CTERM/exosortase system-associated; Region: exosort_acyl; TIGR03694 323848005890 PBP superfamily domain; Region: PBP_like_2; cl17296 323848005891 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 323848005892 PAS domain S-box; Region: sensory_box; TIGR00229 323848005893 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 323848005894 putative active site [active] 323848005895 heme pocket [chemical binding]; other site 323848005896 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323848005897 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323848005898 metal binding site [ion binding]; metal-binding site 323848005899 active site 323848005900 I-site; other site 323848005901 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 323848005902 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 323848005903 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 323848005904 Tetramer interface [polypeptide binding]; other site 323848005905 active site 323848005906 FMN-binding site [chemical binding]; other site 323848005907 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 323848005908 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 323848005909 putative NAD(P) binding site [chemical binding]; other site 323848005910 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 323848005911 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 323848005912 interface (dimer of trimers) [polypeptide binding]; other site 323848005913 Substrate-binding/catalytic site; other site 323848005914 Zn-binding sites [ion binding]; other site 323848005915 thymidylate synthase; Reviewed; Region: thyA; PRK01827 323848005916 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 323848005917 dimerization interface [polypeptide binding]; other site 323848005918 active site 323848005919 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 323848005920 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 323848005921 folate binding site [chemical binding]; other site 323848005922 NADP+ binding site [chemical binding]; other site 323848005923 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 323848005924 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 323848005925 active site 323848005926 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323848005927 dimer interface [polypeptide binding]; other site 323848005928 catalytic residues [active] 323848005929 substrate binding site [chemical binding]; other site 323848005930 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 323848005931 trimer interface [polypeptide binding]; other site 323848005932 active site 323848005933 Domain of unknown function DUF59; Region: DUF59; pfam01883 323848005934 antiporter inner membrane protein; Provisional; Region: PRK11670 323848005935 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 323848005936 Walker A motif; other site 323848005937 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323848005938 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 323848005939 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 323848005940 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 323848005941 TPR motif; other site 323848005942 binding surface 323848005943 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323848005944 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323848005945 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323848005946 HlyD family secretion protein; Region: HlyD_3; pfam13437 323848005947 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 323848005948 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 323848005949 Walker A/P-loop; other site 323848005950 ATP binding site [chemical binding]; other site 323848005951 Q-loop/lid; other site 323848005952 ABC transporter signature motif; other site 323848005953 Walker B; other site 323848005954 D-loop; other site 323848005955 H-loop/switch region; other site 323848005956 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 323848005957 active site 323848005958 catalytic triad [active] 323848005959 oxyanion hole [active] 323848005960 switch loop; other site 323848005961 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 323848005962 Ligand Binding Site [chemical binding]; other site 323848005963 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 323848005964 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 323848005965 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 323848005966 active site 323848005967 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 323848005968 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 323848005969 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 323848005970 ZIP Zinc transporter; Region: Zip; pfam02535 323848005971 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 323848005972 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 323848005973 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 323848005974 FeS/SAM binding site; other site 323848005975 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 323848005976 Permease; Region: Permease; pfam02405 323848005977 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 323848005978 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 323848005979 Walker A/P-loop; other site 323848005980 ATP binding site [chemical binding]; other site 323848005981 Q-loop/lid; other site 323848005982 ABC transporter signature motif; other site 323848005983 Walker B; other site 323848005984 D-loop; other site 323848005985 H-loop/switch region; other site 323848005986 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 323848005987 mce related protein; Region: MCE; pfam02470 323848005988 Protein of unknown function (DUF330); Region: DUF330; cl01135 323848005989 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 323848005990 lipoyl synthase; Provisional; Region: PRK05481 323848005991 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 323848005992 FeS/SAM binding site; other site 323848005993 lipoate-protein ligase B; Provisional; Region: PRK14342 323848005994 Protein of unknown function (DUF493); Region: DUF493; pfam04359 323848005995 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 323848005996 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 323848005997 homodimer interface [polypeptide binding]; other site 323848005998 substrate-cofactor binding pocket; other site 323848005999 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848006000 catalytic residue [active] 323848006001 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 323848006002 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 323848006003 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 323848006004 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 323848006005 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 323848006006 Walker A motif; other site 323848006007 ATP binding site [chemical binding]; other site 323848006008 CobD/CbiB family protein; Provisional; Region: PRK07630 323848006009 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 323848006010 CoA binding domain; Region: CoA_binding; smart00881 323848006011 CoA-ligase; Region: Ligase_CoA; pfam00549 323848006012 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 323848006013 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 323848006014 CoA-ligase; Region: Ligase_CoA; pfam00549 323848006015 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 323848006016 active site 323848006017 rusticyanin; Region: rusti_cyanin; TIGR03095 323848006018 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 323848006019 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 323848006020 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 323848006021 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 323848006022 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 323848006023 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323848006024 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 323848006025 active site 323848006026 catalytic site [active] 323848006027 substrate binding site [chemical binding]; other site 323848006028 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 323848006029 GIY-YIG motif/motif A; other site 323848006030 active site 323848006031 catalytic site [active] 323848006032 putative DNA binding site [nucleotide binding]; other site 323848006033 metal binding site [ion binding]; metal-binding site 323848006034 Staphylococcal nuclease homologues; Region: SNc; smart00318 323848006035 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 323848006036 Catalytic site; other site 323848006037 Helix-turn-helix domain; Region: HTH_37; pfam13744 323848006038 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 323848006039 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323848006040 Soluble P-type ATPase [General function prediction only]; Region: COG4087 323848006041 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 323848006042 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 323848006043 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 323848006044 Integrase core domain; Region: rve_3; pfam13683 323848006045 HTH-like domain; Region: HTH_21; pfam13276 323848006046 Integrase core domain; Region: rve; pfam00665 323848006047 Transposase; Region: HTH_Tnp_1; pfam01527 323848006048 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 323848006049 integron integrase; Region: integrase_gron; TIGR02249 323848006050 active site 323848006051 DNA binding site [nucleotide binding] 323848006052 Int/Topo IB signature motif; other site 323848006053 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 323848006054 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 323848006055 dimer interface [polypeptide binding]; other site 323848006056 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323848006057 ligand binding site [chemical binding]; other site 323848006058 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 323848006059 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 323848006060 putative active site [active] 323848006061 heme pocket [chemical binding]; other site 323848006062 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 323848006063 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 323848006064 putative active site [active] 323848006065 heme pocket [chemical binding]; other site 323848006066 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848006067 dimer interface [polypeptide binding]; other site 323848006068 phosphorylation site [posttranslational modification] 323848006069 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 323848006070 ATP binding site [chemical binding]; other site 323848006071 Mg2+ binding site [ion binding]; other site 323848006072 G-X-G motif; other site 323848006073 RHS Repeat; Region: RHS_repeat; cl11982 323848006074 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848006075 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848006076 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848006077 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848006078 PEP-CTERM motif; Region: VPEP; pfam07589 323848006079 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 323848006080 Integrase core domain; Region: rve; pfam00665 323848006081 Integrase core domain; Region: rve_3; pfam13683 323848006082 Transposase; Region: HTH_Tnp_1; pfam01527 323848006083 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 323848006084 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 323848006085 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 323848006086 DNA-binding interface [nucleotide binding]; DNA binding site 323848006087 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 323848006088 HTH-like domain; Region: HTH_21; pfam13276 323848006089 Integrase core domain; Region: rve; pfam00665 323848006090 Integrase core domain; Region: rve_3; pfam13683 323848006091 Transposase; Region: HTH_Tnp_1; cl17663 323848006092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 323848006093 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848006094 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848006095 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848006096 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 323848006097 Integrase core domain; Region: rve; pfam00665 323848006098 PEP-CTERM motif; Region: VPEP; pfam07589 323848006099 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 323848006100 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 323848006101 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 323848006102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 323848006103 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 323848006104 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 323848006105 ligand binding site [chemical binding]; other site 323848006106 flexible hinge region; other site 323848006107 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 323848006108 putative switch regulator; other site 323848006109 non-specific DNA interactions [nucleotide binding]; other site 323848006110 DNA binding site [nucleotide binding] 323848006111 sequence specific DNA binding site [nucleotide binding]; other site 323848006112 putative cAMP binding site [chemical binding]; other site 323848006113 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 323848006114 Response regulator receiver domain; Region: Response_reg; pfam00072 323848006115 active site 323848006116 phosphorylation site [posttranslational modification] 323848006117 intermolecular recognition site; other site 323848006118 dimerization interface [polypeptide binding]; other site 323848006119 PAS domain S-box; Region: sensory_box; TIGR00229 323848006120 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 323848006121 putative active site [active] 323848006122 heme pocket [chemical binding]; other site 323848006123 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323848006124 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323848006125 metal binding site [ion binding]; metal-binding site 323848006126 active site 323848006127 I-site; other site 323848006128 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 323848006129 Domain of unknown function (DUF932); Region: DUF932; pfam06067 323848006130 RES domain; Region: RES; smart00953 323848006131 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 323848006132 active site 323848006133 NTP binding site [chemical binding]; other site 323848006134 metal binding triad [ion binding]; metal-binding site 323848006135 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 323848006136 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 323848006137 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 323848006138 EamA-like transporter family; Region: EamA; pfam00892 323848006139 Integrase core domain; Region: rve_3; pfam13683 323848006140 HTH-like domain; Region: HTH_21; pfam13276 323848006141 Integrase core domain; Region: rve; pfam00665 323848006142 Transposase; Region: HTH_Tnp_1; pfam01527 323848006143 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 323848006144 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 323848006145 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 323848006146 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 323848006147 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323848006148 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 323848006149 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 323848006150 DNA binding residues [nucleotide binding] 323848006151 DNA primase; Validated; Region: dnaG; PRK05667 323848006152 CHC2 zinc finger; Region: zf-CHC2; pfam01807 323848006153 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 323848006154 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 323848006155 active site 323848006156 metal binding site [ion binding]; metal-binding site 323848006157 interdomain interaction site; other site 323848006158 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 323848006159 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 323848006160 Yqey-like protein; Region: YqeY; pfam09424 323848006161 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 323848006162 tRNA threonylcarbamoyl adenosine modification protein YgjD; Region: T6A_YgjD; TIGR03723 323848006163 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 323848006164 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 323848006165 Dihydroneopterin aldolase; Region: FolB; smart00905 323848006166 active site 323848006167 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 323848006168 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 323848006169 active site 323848006170 dimer interface [polypeptide binding]; other site 323848006171 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 323848006172 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 323848006173 IHF dimer interface [polypeptide binding]; other site 323848006174 IHF - DNA interface [nucleotide binding]; other site 323848006175 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 323848006176 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 323848006177 RNA binding site [nucleotide binding]; other site 323848006178 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 323848006179 RNA binding site [nucleotide binding]; other site 323848006180 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 323848006181 RNA binding site [nucleotide binding]; other site 323848006182 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 323848006183 RNA binding site [nucleotide binding]; other site 323848006184 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 323848006185 RNA binding site [nucleotide binding]; other site 323848006186 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 323848006187 RNA binding site [nucleotide binding]; other site 323848006188 cytidylate kinase; Provisional; Region: cmk; PRK00023 323848006189 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 323848006190 CMP-binding site; other site 323848006191 The sites determining sugar specificity; other site 323848006192 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 323848006193 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 323848006194 hinge; other site 323848006195 active site 323848006196 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 323848006197 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 323848006198 dimer interface [polypeptide binding]; other site 323848006199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848006200 catalytic residue [active] 323848006201 serine O-acetyltransferase; Region: cysE; TIGR01172 323848006202 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 323848006203 trimer interface [polypeptide binding]; other site 323848006204 active site 323848006205 substrate binding site [chemical binding]; other site 323848006206 CoA binding site [chemical binding]; other site 323848006207 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 323848006208 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323848006209 Sel1-like repeats; Region: SEL1; smart00671 323848006210 Sel1 repeat; Region: Sel1; cl02723 323848006211 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 323848006212 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 323848006213 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323848006214 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 323848006215 Predicted integral membrane protein [Function unknown]; Region: COG5615 323848006216 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 323848006217 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 323848006218 Transglycosylase; Region: Transgly; pfam00912 323848006219 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 323848006220 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 323848006221 dimer interface [polypeptide binding]; other site 323848006222 active site 323848006223 aspartate-rich active site metal binding site; other site 323848006224 allosteric magnesium binding site [ion binding]; other site 323848006225 Schiff base residues; other site 323848006226 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 323848006227 G1 box; other site 323848006228 GTP/Mg2+ binding site [chemical binding]; other site 323848006229 Switch I region; other site 323848006230 G2 box; other site 323848006231 G3 box; other site 323848006232 Switch II region; other site 323848006233 G4 box; other site 323848006234 G5 box; other site 323848006235 pantothenate kinase; Reviewed; Region: PRK13329 323848006236 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 323848006237 Biotin operon repressor [Transcription]; Region: BirA; COG1654 323848006238 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 323848006239 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 323848006240 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323848006241 active site 323848006242 HIGH motif; other site 323848006243 nucleotide binding site [chemical binding]; other site 323848006244 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 323848006245 KMSKS motif; other site 323848006246 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 323848006247 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 323848006248 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 323848006249 catalytic residues [active] 323848006250 transcription termination factor Rho; Provisional; Region: rho; PRK09376 323848006251 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 323848006252 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 323848006253 RNA binding site [nucleotide binding]; other site 323848006254 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 323848006255 multimer interface [polypeptide binding]; other site 323848006256 Walker A motif; other site 323848006257 ATP binding site [chemical binding]; other site 323848006258 Walker B motif; other site 323848006259 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 323848006260 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 323848006261 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323848006262 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 323848006263 active site 323848006264 metal binding site [ion binding]; metal-binding site 323848006265 SGNH_hydrolase, or GDSL_hydrolase, is 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; its active site closely...; Region: SGNH_hydrolase; cd00229 323848006266 active site 323848006267 catalytic triad [active] 323848006268 oxyanion hole [active] 323848006269 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 323848006270 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 323848006271 active site 323848006272 catalytic site [active] 323848006273 metal binding site [ion binding]; metal-binding site 323848006274 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 323848006275 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 323848006276 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323848006277 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 323848006278 dimer interface [polypeptide binding]; other site 323848006279 substrate binding site [chemical binding]; other site 323848006280 metal binding sites [ion binding]; metal-binding site 323848006281 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 323848006282 Peptidase M35 family; Region: M35_like; cl03449 323848006283 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 323848006284 putative active site [active] 323848006285 Winged helix-turn helix; Region: HTH_29; pfam13551 323848006286 Helix-turn-helix domain; Region: HTH_28; pfam13518 323848006287 Integrase core domain; Region: rve; pfam00665 323848006288 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 323848006289 Integrase core domain; Region: rve_3; pfam13683 323848006290 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 323848006291 Found in ATP-dependent protease La (LON); Region: LON; smart00464 323848006292 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848006293 Walker A motif; other site 323848006294 ATP binding site [chemical binding]; other site 323848006295 Walker B motif; other site 323848006296 arginine finger; other site 323848006297 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 323848006298 Winged helix-turn helix; Region: HTH_29; pfam13551 323848006299 Helix-turn-helix domain; Region: HTH_28; pfam13518 323848006300 Integrase core domain; Region: rve; pfam00665 323848006301 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 323848006302 Integrase core domain; Region: rve_3; pfam13683 323848006303 Cupin domain; Region: Cupin_2; pfam07883 323848006304 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 323848006305 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 323848006306 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 323848006307 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 323848006308 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 323848006309 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 323848006310 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 323848006311 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 323848006312 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 323848006313 HlyD family secretion protein; Region: HlyD_3; pfam13437 323848006314 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 323848006315 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 323848006316 methionine sulfoxide reductase B; Provisional; Region: PRK00222 323848006317 SelR domain; Region: SelR; pfam01641 323848006318 intracellular septation protein A; Reviewed; Region: PRK00259 323848006319 YciI-like protein; Reviewed; Region: PRK11370 323848006320 BolA-like protein; Region: BolA; pfam01722 323848006321 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 323848006322 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 323848006323 alanine racemase; Reviewed; Region: alr; PRK00053 323848006324 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 323848006325 active site 323848006326 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323848006327 substrate binding site [chemical binding]; other site 323848006328 catalytic residues [active] 323848006329 dimer interface [polypeptide binding]; other site 323848006330 lysophospholipid transporter LplT; Provisional; Region: PRK11195 323848006331 Repair protein; Region: Repair_PSII; pfam04536 323848006332 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 323848006333 Repair protein; Region: Repair_PSII; pfam04536 323848006334 LemA family; Region: LemA; pfam04011 323848006335 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 323848006336 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 323848006337 Fe-S cluster binding site [ion binding]; other site 323848006338 active site 323848006339 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 323848006340 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323848006341 Coenzyme A binding pocket [chemical binding]; other site 323848006342 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 323848006343 Glycoprotease family; Region: Peptidase_M22; pfam00814 323848006344 Protein required for attachment to host cells; Region: Host_attach; pfam10116 323848006345 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 323848006346 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 323848006347 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 323848006348 homotrimer interaction site [polypeptide binding]; other site 323848006349 zinc binding site [ion binding]; other site 323848006350 CDP-binding sites; other site 323848006351 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 323848006352 substrate binding site; other site 323848006353 dimer interface; other site 323848006354 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 323848006355 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848006356 Walker A motif; other site 323848006357 ATP binding site [chemical binding]; other site 323848006358 Walker B motif; other site 323848006359 arginine finger; other site 323848006360 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 323848006361 hypothetical protein; Provisional; Region: PRK05287 323848006362 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 323848006363 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 323848006364 CoA-binding site [chemical binding]; other site 323848006365 ATP-binding [chemical binding]; other site 323848006366 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 323848006367 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 323848006368 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 323848006369 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 323848006370 Domain of unknown function DUF21; Region: DUF21; pfam01595 323848006371 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 323848006372 Transporter associated domain; Region: CorC_HlyC; smart01091 323848006373 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 323848006374 signal recognition particle protein; Provisional; Region: PRK10867 323848006375 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 323848006376 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 323848006377 P loop; other site 323848006378 GTP binding site [chemical binding]; other site 323848006379 Signal peptide binding domain; Region: SRP_SPB; pfam02978 323848006380 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 323848006381 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 323848006382 trimer interface [polypeptide binding]; other site 323848006383 active site 323848006384 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 323848006385 Flavoprotein; Region: Flavoprotein; pfam02441 323848006386 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 323848006387 hypothetical protein; Reviewed; Region: PRK00024 323848006388 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 323848006389 MPN+ (JAMM) motif; other site 323848006390 Zinc-binding site [ion binding]; other site 323848006391 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 323848006392 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 323848006393 Fatty acid desaturase; Region: FA_desaturase; pfam00487 323848006394 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 323848006395 Di-iron ligands [ion binding]; other site 323848006396 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 323848006397 Transposase; Region: DDE_Tnp_ISL3; pfam01610 323848006398 Isochorismatase family; Region: Isochorismatase; pfam00857 323848006399 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 323848006400 catalytic triad [active] 323848006401 conserved cis-peptide bond; other site 323848006402 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 323848006403 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 323848006404 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 323848006405 putative NAD(P) binding site [chemical binding]; other site 323848006406 active site 323848006407 DoxX-like family; Region: DoxX_3; pfam13781 323848006408 Predicted membrane protein [Function unknown]; Region: COG2323 323848006409 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 323848006410 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 323848006411 active site 323848006412 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 323848006413 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 323848006414 NAD binding site [chemical binding]; other site 323848006415 catalytic Zn binding site [ion binding]; other site 323848006416 structural Zn binding site [ion binding]; other site 323848006417 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 323848006418 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323848006419 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 323848006420 putative homodimer interface [polypeptide binding]; other site 323848006421 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 323848006422 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 323848006423 Amidohydrolase; Region: Amidohydro_2; pfam04909 323848006424 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323848006425 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 323848006426 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 323848006427 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 323848006428 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 323848006429 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 323848006430 Tyrosinase co-factor MelC1; Region: MelC1; pfam06236 323848006431 RNA 3'-phosphate cyclase; Region: RNA_3prim_cycl; TIGR03399 323848006432 RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine...; Region: RNA_Cyclase_Class_II; cd00874 323848006433 putative active site [active] 323848006434 adenylation catalytic residue [active] 323848006435 Protein of unknown function (DUF504); Region: DUF504; pfam04457 323848006436 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 323848006437 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 323848006438 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 323848006439 catalytic nucleophile [active] 323848006440 Cytochrome P450; Region: p450; pfam00067 323848006441 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 323848006442 Uncharacterized conserved protein [Function unknown]; Region: COG3422 323848006443 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 323848006444 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 323848006445 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 323848006446 active site 323848006447 Zn binding site [ion binding]; other site 323848006448 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 323848006449 dimer interface [polypeptide binding]; other site 323848006450 Transposase; Region: HTH_Tnp_1; cl17663 323848006451 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 323848006452 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 323848006453 HTH-like domain; Region: HTH_21; pfam13276 323848006454 Integrase core domain; Region: rve; pfam00665 323848006455 Integrase core domain; Region: rve_3; pfam13683 323848006456 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 323848006457 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 323848006458 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 323848006459 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 323848006460 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 323848006461 DNA methylase; Region: N6_N4_Mtase; pfam01555 323848006462 Domain of unknown function (DUF927); Region: DUF927; cl12098 323848006463 Domain of unknown function (DUF927); Region: DUF927; pfam06048 323848006464 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 323848006465 integrase; Provisional; Region: PRK09692 323848006466 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 323848006467 active site 323848006468 Int/Topo IB signature motif; other site 323848006469 phosphoglycolate phosphatase; Provisional; Region: PRK13222 323848006470 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 323848006471 motif II; other site 323848006472 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 323848006473 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 323848006474 S-adenosylmethionine binding site [chemical binding]; other site 323848006475 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 323848006476 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 323848006477 active site 323848006478 putative substrate binding pocket [chemical binding]; other site 323848006479 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323848006480 ligand binding site [chemical binding]; other site 323848006481 DNA gyrase subunit A; Validated; Region: PRK05560 323848006482 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 323848006483 CAP-like domain; other site 323848006484 active site 323848006485 primary dimer interface [polypeptide binding]; other site 323848006486 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323848006487 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323848006488 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323848006489 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323848006490 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323848006491 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323848006492 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 323848006493 homodimer interface [polypeptide binding]; other site 323848006494 substrate-cofactor binding pocket; other site 323848006495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848006496 catalytic residue [active] 323848006497 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 323848006498 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 323848006499 putative ligand binding site [chemical binding]; other site 323848006500 putative NAD binding site [chemical binding]; other site 323848006501 putative catalytic site [active] 323848006502 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 323848006503 L-serine binding site [chemical binding]; other site 323848006504 ACT domain interface; other site 323848006505 Chorismate mutase type II; Region: CM_2; cl00693 323848006506 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 323848006507 Prephenate dehydratase; Region: PDT; pfam00800 323848006508 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 323848006509 putative L-Phe binding site [chemical binding]; other site 323848006510 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 323848006511 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 323848006512 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848006513 homodimer interface [polypeptide binding]; other site 323848006514 catalytic residue [active] 323848006515 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 323848006516 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 323848006517 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 323848006518 prephenate dehydrogenase; Validated; Region: PRK08507 323848006519 Uncharacterized conserved protein [Function unknown]; Region: COG3461 323848006520 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 323848006521 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 323848006522 active site 323848006523 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 323848006524 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 323848006525 Walker A/P-loop; other site 323848006526 ATP binding site [chemical binding]; other site 323848006527 Q-loop/lid; other site 323848006528 ABC transporter signature motif; other site 323848006529 Walker B; other site 323848006530 D-loop; other site 323848006531 H-loop/switch region; other site 323848006532 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 323848006533 putative carbohydrate binding site [chemical binding]; other site 323848006534 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 323848006535 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 323848006536 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 323848006537 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 323848006538 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 323848006539 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 323848006540 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 323848006541 inhibitor-cofactor binding pocket; inhibition site 323848006542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848006543 catalytic residue [active] 323848006544 LabA_like proteins; Region: LabA_like; cd06167 323848006545 putative metal binding site [ion binding]; other site 323848006546 Uncharacterized conserved protein [Function unknown]; Region: COG1432 323848006547 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 323848006548 BON domain; Region: BON; pfam04972 323848006549 BON domain; Region: BON; pfam04972 323848006550 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 323848006551 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 323848006552 putative active site [active] 323848006553 heme pocket [chemical binding]; other site 323848006554 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 323848006555 putative active site [active] 323848006556 heme pocket [chemical binding]; other site 323848006557 sensor protein ZraS; Provisional; Region: PRK10364 323848006558 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 323848006559 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848006560 dimer interface [polypeptide binding]; other site 323848006561 phosphorylation site [posttranslational modification] 323848006562 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 323848006563 ATP binding site [chemical binding]; other site 323848006564 Mg2+ binding site [ion binding]; other site 323848006565 G-X-G motif; other site 323848006566 Response regulator receiver domain; Region: Response_reg; pfam00072 323848006567 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 323848006568 active site 323848006569 phosphorylation site [posttranslational modification] 323848006570 intermolecular recognition site; other site 323848006571 dimerization interface [polypeptide binding]; other site 323848006572 Winged helix-turn helix; Region: HTH_29; pfam13551 323848006573 Helix-turn-helix domain; Region: HTH_28; pfam13518 323848006574 Integrase core domain; Region: rve; pfam00665 323848006575 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 323848006576 Integrase core domain; Region: rve_3; pfam13683 323848006577 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 323848006578 peptide binding site [polypeptide binding]; other site 323848006579 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 323848006580 toxin interface [polypeptide binding]; other site 323848006581 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 323848006582 Zn binding site [ion binding]; other site 323848006583 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 323848006584 toxin interface [polypeptide binding]; other site 323848006585 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 323848006586 YgiT-type zinc finger domain; Region: YgiT_finger; TIGR03831 323848006587 Zn binding site [ion binding]; other site 323848006588 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 323848006589 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 323848006590 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 323848006591 YccA-like proteins; Region: YccA_like; cd10433 323848006592 TRAM domain; Region: TRAM; cl01282 323848006593 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 323848006594 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 323848006595 S-adenosylmethionine binding site [chemical binding]; other site 323848006596 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 323848006597 active site 323848006598 catalytic site [active] 323848006599 substrate binding site [chemical binding]; other site 323848006600 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 323848006601 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 323848006602 Dicarboxylate transport; Region: DctA-YdbH; cl14674 323848006603 cysteine synthase B; Region: cysM; TIGR01138 323848006604 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 323848006605 dimer interface [polypeptide binding]; other site 323848006606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848006607 catalytic residue [active] 323848006608 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 323848006609 Helix-hairpin-helix motif; Region: HHH; pfam00633 323848006610 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 323848006611 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 323848006612 Methyltransferase domain; Region: Methyltransf_26; pfam13659 323848006613 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 323848006614 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 323848006615 dimer interface [polypeptide binding]; other site 323848006616 ssDNA binding site [nucleotide binding]; other site 323848006617 tetramer (dimer of dimers) interface [polypeptide binding]; other site 323848006618 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 323848006619 Major Facilitator Superfamily; Region: MFS_1; pfam07690 323848006620 putative substrate translocation pore; other site 323848006621 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 323848006622 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 323848006623 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 323848006624 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 323848006625 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 323848006626 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 323848006627 MOFRL family; Region: MOFRL; pfam05161 323848006628 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 323848006629 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 323848006630 active site 323848006631 phosphorylation site [posttranslational modification] 323848006632 intermolecular recognition site; other site 323848006633 dimerization interface [polypeptide binding]; other site 323848006634 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 323848006635 DNA binding site [nucleotide binding] 323848006636 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 323848006637 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 323848006638 PAS domain; Region: PAS_8; pfam13188 323848006639 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848006640 dimer interface [polypeptide binding]; other site 323848006641 phosphorylation site [posttranslational modification] 323848006642 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 323848006643 ATP binding site [chemical binding]; other site 323848006644 Mg2+ binding site [ion binding]; other site 323848006645 G-X-G motif; other site 323848006646 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 323848006647 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 323848006648 dimer interface [polypeptide binding]; other site 323848006649 ADP-ribose binding site [chemical binding]; other site 323848006650 active site 323848006651 nudix motif; other site 323848006652 metal binding site [ion binding]; metal-binding site 323848006653 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 323848006654 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 323848006655 Cu(I) binding site [ion binding]; other site 323848006656 Uncharacterized conserved protein [Function unknown]; Region: COG3391 323848006657 chaperone protein DnaJ; Provisional; Region: PRK10767 323848006658 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 323848006659 HSP70 interaction site [polypeptide binding]; other site 323848006660 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 323848006661 substrate binding site [polypeptide binding]; other site 323848006662 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 323848006663 Zn binding sites [ion binding]; other site 323848006664 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 323848006665 dimer interface [polypeptide binding]; other site 323848006666 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 323848006667 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 323848006668 nucleotide binding site [chemical binding]; other site 323848006669 GrpE; Region: GrpE; pfam01025 323848006670 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 323848006671 dimer interface [polypeptide binding]; other site 323848006672 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 323848006673 adenylosuccinate lyase; Provisional; Region: PRK09285 323848006674 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 323848006675 tetramer interface [polypeptide binding]; other site 323848006676 active site 323848006677 putative glutathione S-transferase; Provisional; Region: PRK10357 323848006678 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 323848006679 putative C-terminal domain interface [polypeptide binding]; other site 323848006680 putative GSH binding site (G-site) [chemical binding]; other site 323848006681 putative dimer interface [polypeptide binding]; other site 323848006682 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 323848006683 dimer interface [polypeptide binding]; other site 323848006684 N-terminal domain interface [polypeptide binding]; other site 323848006685 putative substrate binding pocket (H-site) [chemical binding]; other site 323848006686 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 323848006687 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 323848006688 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 323848006689 nudix motif; other site 323848006690 isocitrate dehydrogenase; Validated; Region: PRK07362 323848006691 isocitrate dehydrogenase; Reviewed; Region: PRK07006 323848006692 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 323848006693 DNA-binding site [nucleotide binding]; DNA binding site 323848006694 RNA-binding motif; other site 323848006695 Uncharacterized conserved protein [Function unknown]; Region: COG2127 323848006696 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 323848006697 Clp amino terminal domain; Region: Clp_N; pfam02861 323848006698 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848006699 Walker A motif; other site 323848006700 ATP binding site [chemical binding]; other site 323848006701 Walker B motif; other site 323848006702 arginine finger; other site 323848006703 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848006704 Walker A motif; other site 323848006705 ATP binding site [chemical binding]; other site 323848006706 Walker B motif; other site 323848006707 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 323848006708 Dodecin; Region: Dodecin; pfam07311 323848006709 cyanophycin synthetase; Provisional; Region: PRK14016 323848006710 ATP-grasp domain; Region: ATP-grasp_4; cl17255 323848006711 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323848006712 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323848006713 cyanophycin synthetase; Provisional; Region: PRK14016 323848006714 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 323848006715 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323848006716 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 323848006717 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 323848006718 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 323848006719 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 323848006720 Walker A/P-loop; other site 323848006721 ATP binding site [chemical binding]; other site 323848006722 Q-loop/lid; other site 323848006723 ABC transporter signature motif; other site 323848006724 Walker B; other site 323848006725 D-loop; other site 323848006726 H-loop/switch region; other site 323848006727 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 323848006728 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 323848006729 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848006730 homodimer interface [polypeptide binding]; other site 323848006731 catalytic residue [active] 323848006732 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 323848006733 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 323848006734 Methyltransferase domain; Region: Methyltransf_31; pfam13847 323848006735 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 323848006736 S-adenosylmethionine binding site [chemical binding]; other site 323848006737 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 323848006738 S-adenosylmethionine binding site [chemical binding]; other site 323848006739 Methyltransferase domain; Region: Methyltransf_18; pfam12847 323848006740 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 323848006741 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; pfam10043 323848006742 TIR domain; Region: TIR_2; pfam13676 323848006743 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_6; cd06154 323848006744 homotrimer interaction site [polypeptide binding]; other site 323848006745 putative active site [active] 323848006746 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 323848006747 DNA binding residues [nucleotide binding] 323848006748 sucrose synthase; Region: sucr_synth; TIGR02470 323848006749 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 323848006750 putative ADP-binding pocket [chemical binding]; other site 323848006751 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 323848006752 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 323848006753 putative ADP-binding pocket [chemical binding]; other site 323848006754 sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial; Region: sucr_syn_bact_C; TIGR02471 323848006755 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 323848006756 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 323848006757 putative substrate binding site [chemical binding]; other site 323848006758 putative ATP binding site [chemical binding]; other site 323848006759 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 323848006760 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 323848006761 S-adenosylmethionine binding site [chemical binding]; other site 323848006762 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 323848006763 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 323848006764 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 323848006765 substrate binding site [chemical binding]; other site 323848006766 catalytic Zn binding site [ion binding]; other site 323848006767 NAD binding site [chemical binding]; other site 323848006768 structural Zn binding site [ion binding]; other site 323848006769 dimer interface [polypeptide binding]; other site 323848006770 S-formylglutathione hydrolase; Region: PLN02442 323848006771 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 323848006772 peptide chain release factor 2; Provisional; Region: PRK08787 323848006773 This domain is found in peptide chain release factors; Region: PCRF; smart00937 323848006774 RF-1 domain; Region: RF-1; pfam00472 323848006775 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 323848006776 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 323848006777 dimer interface [polypeptide binding]; other site 323848006778 putative anticodon binding site; other site 323848006779 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 323848006780 motif 1; other site 323848006781 active site 323848006782 motif 2; other site 323848006783 motif 3; other site 323848006784 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 323848006785 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 323848006786 metal-binding site [ion binding] 323848006787 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 323848006788 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 323848006789 metal-binding site [ion binding] 323848006790 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323848006791 Soluble P-type ATPase [General function prediction only]; Region: COG4087 323848006792 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 323848006793 metal-binding site [ion binding] 323848006794 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 323848006795 putative homodimer interface [polypeptide binding]; other site 323848006796 putative homotetramer interface [polypeptide binding]; other site 323848006797 putative allosteric switch controlling residues; other site 323848006798 putative metal binding site [ion binding]; other site 323848006799 putative homodimer-homodimer interface [polypeptide binding]; other site 323848006800 Cytochrome c; Region: Cytochrom_C; cl11414 323848006801 Cytochrome c; Region: Cytochrom_C; cl11414 323848006802 Cytochrome c; Region: Cytochrom_C; pfam00034 323848006803 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323848006804 Cytochrome c; Region: Cytochrom_C; pfam00034 323848006805 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323848006806 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 323848006807 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 323848006808 putative NADP binding site [chemical binding]; other site 323848006809 putative substrate binding site [chemical binding]; other site 323848006810 active site 323848006811 MutS domain III; Region: MutS_III; pfam05192 323848006812 ATP-binding cassette domain of MutS homologs; Region: ABC_MutS_homologs; cd03243 323848006813 Walker A/P-loop; other site 323848006814 ATP binding site [chemical binding]; other site 323848006815 Q-loop/lid; other site 323848006816 ABC transporter signature motif; other site 323848006817 Walker B; other site 323848006818 D-loop; other site 323848006819 H-loop/switch region; other site 323848006820 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 323848006821 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 323848006822 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 323848006823 S-adenosylmethionine binding site [chemical binding]; other site 323848006824 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 323848006825 ThiC-associated domain; Region: ThiC-associated; pfam13667 323848006826 ThiC family; Region: ThiC; pfam01964 323848006827 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 323848006828 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 323848006829 active site residue [active] 323848006830 glutamine synthetase; Provisional; Region: glnA; PRK09469 323848006831 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 323848006832 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 323848006833 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323848006834 Sel1-like repeats; Region: SEL1; smart00671 323848006835 Sel1-like repeats; Region: SEL1; smart00671 323848006836 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 323848006837 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848006838 RHS Repeat; Region: RHS_repeat; pfam05593 323848006839 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 323848006840 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 323848006841 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 323848006842 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 323848006843 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323848006844 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 323848006845 active site 323848006846 phosphorylation site [posttranslational modification] 323848006847 intermolecular recognition site; other site 323848006848 Response regulator receiver domain; Region: Response_reg; pfam00072 323848006849 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 323848006850 active site 323848006851 phosphorylation site [posttranslational modification] 323848006852 intermolecular recognition site; other site 323848006853 PAS fold; Region: PAS_3; pfam08447 323848006854 GAF domain; Region: GAF; pfam01590 323848006855 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 323848006856 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323848006857 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323848006858 metal binding site [ion binding]; metal-binding site 323848006859 active site 323848006860 I-site; other site 323848006861 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 323848006862 Response regulator receiver domain; Region: Response_reg; pfam00072 323848006863 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 323848006864 active site 323848006865 phosphorylation site [posttranslational modification] 323848006866 intermolecular recognition site; other site 323848006867 dimerization interface [polypeptide binding]; other site 323848006868 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 323848006869 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 323848006870 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 323848006871 putative active site [active] 323848006872 heme pocket [chemical binding]; other site 323848006873 PAS domain; Region: PAS_8; pfam13188 323848006874 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323848006875 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848006876 dimer interface [polypeptide binding]; other site 323848006877 phosphorylation site [posttranslational modification] 323848006878 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 323848006879 ATP binding site [chemical binding]; other site 323848006880 Mg2+ binding site [ion binding]; other site 323848006881 G-X-G motif; other site 323848006882 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 323848006883 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 323848006884 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 323848006885 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 323848006886 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 323848006887 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 323848006888 DEAD-like helicases superfamily; Region: DEXDc; smart00487 323848006889 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 323848006890 ATP binding site [chemical binding]; other site 323848006891 putative Mg++ binding site [ion binding]; other site 323848006892 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 323848006893 nucleotide binding region [chemical binding]; other site 323848006894 ATP-binding site [chemical binding]; other site 323848006895 O-methyltransferase; Region: Methyltransf_2; pfam00891 323848006896 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323848006897 NAD(P) binding site [chemical binding]; other site 323848006898 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 323848006899 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 323848006900 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 323848006901 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 323848006902 substrate binding pocket [chemical binding]; other site 323848006903 membrane-bound complex binding site; other site 323848006904 hinge residues; other site 323848006905 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 323848006906 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323848006907 catalytic residue [active] 323848006908 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 323848006909 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 323848006910 dimer interface [polypeptide binding]; other site 323848006911 decamer (pentamer of dimers) interface [polypeptide binding]; other site 323848006912 catalytic triad [active] 323848006913 siroheme synthase; Provisional; Region: cysG; PRK10637 323848006914 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 323848006915 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 323848006916 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 323848006917 active site 323848006918 SAM binding site [chemical binding]; other site 323848006919 homodimer interface [polypeptide binding]; other site 323848006920 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 323848006921 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 323848006922 active site 323848006923 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 323848006924 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 323848006925 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 323848006926 Peptidase family M50; Region: Peptidase_M50; pfam02163 323848006927 active site 323848006928 putative substrate binding region [chemical binding]; other site 323848006929 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 323848006930 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 323848006931 active site 323848006932 HIGH motif; other site 323848006933 dimer interface [polypeptide binding]; other site 323848006934 KMSKS motif; other site 323848006935 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 323848006936 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 323848006937 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 323848006938 Cytochrome c; Region: Cytochrom_C; pfam00034 323848006939 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 323848006940 CopC domain; Region: CopC; pfam04234 323848006941 methane monooxygenase/ammonia monooxygenase, subunit B; Region: CH4_NH3mon_ox_B; TIGR03079 323848006942 Monooxygenase subunit B protein; Region: Monooxygenase_B; pfam04744 323848006943 methane monooxygenase/ammonia monooxygenase, subunit A; Region: CH4_NH3mon_ox_A; TIGR03080 323848006944 methane monooxygenase/ammonia monooxygenase, subunit C; Region: CH4_NH3mon_ox_C; TIGR03078 323848006945 primosome assembly protein PriA; Validated; Region: PRK05580 323848006946 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 323848006947 ATP binding site [chemical binding]; other site 323848006948 putative Mg++ binding site [ion binding]; other site 323848006949 RTX toxin acyltransferase family; Region: HlyC; cl01131 323848006950 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 323848006951 ATP-binding site [chemical binding]; other site 323848006952 argininosuccinate lyase; Provisional; Region: PRK00855 323848006953 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 323848006954 active sites [active] 323848006955 tetramer interface [polypeptide binding]; other site 323848006956 Phosphotransferase enzyme family; Region: APH; pfam01636 323848006957 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 323848006958 active site 323848006959 ATP binding site [chemical binding]; other site 323848006960 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 323848006961 substrate binding site [chemical binding]; other site 323848006962 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 323848006963 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 323848006964 G1 box; other site 323848006965 putative GEF interaction site [polypeptide binding]; other site 323848006966 GTP/Mg2+ binding site [chemical binding]; other site 323848006967 Switch I region; other site 323848006968 G2 box; other site 323848006969 G3 box; other site 323848006970 Switch II region; other site 323848006971 G4 box; other site 323848006972 G5 box; other site 323848006973 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 323848006974 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 323848006975 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 323848006976 Walker A/P-loop; other site 323848006977 ATP binding site [chemical binding]; other site 323848006978 Q-loop/lid; other site 323848006979 ABC transporter signature motif; other site 323848006980 Walker B; other site 323848006981 D-loop; other site 323848006982 H-loop/switch region; other site 323848006983 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 323848006984 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 323848006985 Walker A/P-loop; other site 323848006986 ATP binding site [chemical binding]; other site 323848006987 Q-loop/lid; other site 323848006988 ABC transporter signature motif; other site 323848006989 Walker B; other site 323848006990 D-loop; other site 323848006991 H-loop/switch region; other site 323848006992 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 323848006993 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 323848006994 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323848006995 dimer interface [polypeptide binding]; other site 323848006996 conserved gate region; other site 323848006997 putative PBP binding loops; other site 323848006998 ABC-ATPase subunit interface; other site 323848006999 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 323848007000 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 323848007001 dimer interface [polypeptide binding]; other site 323848007002 conserved gate region; other site 323848007003 putative PBP binding loops; other site 323848007004 ABC-ATPase subunit interface; other site 323848007005 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_18; cd08505 323848007006 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 323848007007 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 323848007008 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 323848007009 NAD binding site [chemical binding]; other site 323848007010 homotetramer interface [polypeptide binding]; other site 323848007011 homodimer interface [polypeptide binding]; other site 323848007012 substrate binding site [chemical binding]; other site 323848007013 active site 323848007014 SurA N-terminal domain; Region: SurA_N_3; pfam13624 323848007015 periplasmic folding chaperone; Provisional; Region: PRK10788 323848007016 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 323848007017 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 323848007018 IHF dimer interface [polypeptide binding]; other site 323848007019 IHF - DNA interface [nucleotide binding]; other site 323848007020 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 323848007021 Found in ATP-dependent protease La (LON); Region: LON; smart00464 323848007022 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848007023 Walker A motif; other site 323848007024 ATP binding site [chemical binding]; other site 323848007025 Walker B motif; other site 323848007026 arginine finger; other site 323848007027 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 323848007028 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 323848007029 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 323848007030 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848007031 Walker A motif; other site 323848007032 ATP binding site [chemical binding]; other site 323848007033 Walker B motif; other site 323848007034 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 323848007035 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 323848007036 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 323848007037 oligomer interface [polypeptide binding]; other site 323848007038 active site residues [active] 323848007039 trigger factor; Provisional; Region: tig; PRK01490 323848007040 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 323848007041 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 323848007042 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 323848007043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323848007044 NAD(P) binding site [chemical binding]; other site 323848007045 active site 323848007046 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 323848007047 active site lid residues [active] 323848007048 substrate binding pocket [chemical binding]; other site 323848007049 catalytic residues [active] 323848007050 substrate-Mg2+ binding site; other site 323848007051 aspartate-rich region 1; other site 323848007052 aspartate-rich region 2; other site 323848007053 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 323848007054 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 323848007055 ring oligomerisation interface [polypeptide binding]; other site 323848007056 ATP/Mg binding site [chemical binding]; other site 323848007057 stacking interactions; other site 323848007058 hinge regions; other site 323848007059 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 323848007060 oligomerisation interface [polypeptide binding]; other site 323848007061 mobile loop; other site 323848007062 roof hairpin; other site 323848007063 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848007064 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848007065 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848007066 Phospholipid methyltransferase; Region: PEMT; cl17370 323848007067 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848007068 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 323848007069 Walker A motif; other site 323848007070 ATP binding site [chemical binding]; other site 323848007071 Walker B motif; other site 323848007072 arginine finger; other site 323848007073 TPR repeat; Region: TPR_11; pfam13414 323848007074 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 323848007075 binding surface 323848007076 TPR motif; other site 323848007077 TPR repeat; Region: TPR_11; pfam13414 323848007078 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 323848007079 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 323848007080 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323848007081 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 323848007082 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323848007083 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 323848007084 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 323848007085 ATP binding site [chemical binding]; other site 323848007086 Walker A motif; other site 323848007087 hexamer interface [polypeptide binding]; other site 323848007088 Walker B motif; other site 323848007089 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 323848007090 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 contains...; Region: CpaE_like; cd03111 323848007091 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 contains...; Region: CpaE_like; cd03111 323848007092 TadE-like protein; Region: TadE; pfam07811 323848007093 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 323848007094 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 323848007095 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 323848007096 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 323848007097 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 323848007098 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 323848007099 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 323848007100 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 323848007101 inhibitor-cofactor binding pocket; inhibition site 323848007102 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848007103 catalytic residue [active] 323848007104 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 323848007105 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 323848007106 active site 323848007107 anthranilate synthase component I; Provisional; Region: PRK13565 323848007108 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 323848007109 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 323848007110 phosphoglycolate phosphatase; Provisional; Region: PRK13222 323848007111 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 323848007112 motif II; other site 323848007113 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 323848007114 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 323848007115 substrate binding site [chemical binding]; other site 323848007116 hexamer interface [polypeptide binding]; other site 323848007117 metal binding site [ion binding]; metal-binding site 323848007118 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 323848007119 GTP-binding protein Der; Reviewed; Region: PRK00093 323848007120 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 323848007121 G1 box; other site 323848007122 GTP/Mg2+ binding site [chemical binding]; other site 323848007123 Switch I region; other site 323848007124 G2 box; other site 323848007125 Switch II region; other site 323848007126 G3 box; other site 323848007127 G4 box; other site 323848007128 G5 box; other site 323848007129 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 323848007130 G1 box; other site 323848007131 GTP/Mg2+ binding site [chemical binding]; other site 323848007132 Switch I region; other site 323848007133 G2 box; other site 323848007134 G3 box; other site 323848007135 Switch II region; other site 323848007136 G4 box; other site 323848007137 G5 box; other site 323848007138 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 323848007139 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 323848007140 Trp docking motif [polypeptide binding]; other site 323848007141 active site 323848007142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 323848007143 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 323848007144 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 323848007145 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 323848007146 dimer interface [polypeptide binding]; other site 323848007147 motif 1; other site 323848007148 active site 323848007149 motif 2; other site 323848007150 motif 3; other site 323848007151 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 323848007152 anticodon binding site; other site 323848007153 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 323848007154 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 323848007155 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 323848007156 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 323848007157 Helix-turn-helix domain; Region: HTH_25; pfam13413 323848007158 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 323848007159 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 323848007160 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 323848007161 FeS/SAM binding site; other site 323848007162 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 323848007163 active site 323848007164 multimer interface [polypeptide binding]; other site 323848007165 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 323848007166 Zn binding site [ion binding]; other site 323848007167 Protein of unknown function, DUF399; Region: DUF399; pfam04187 323848007168 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 323848007169 protein binding site [polypeptide binding]; other site 323848007170 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 323848007171 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 323848007172 dimerization interface [polypeptide binding]; other site 323848007173 ATP binding site [chemical binding]; other site 323848007174 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 323848007175 dimerization interface [polypeptide binding]; other site 323848007176 ATP binding site [chemical binding]; other site 323848007177 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 323848007178 putative active site [active] 323848007179 catalytic triad [active] 323848007180 Uncharacterized conserved protein [Function unknown]; Region: COG0062 323848007181 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 323848007182 putative substrate binding site [chemical binding]; other site 323848007183 putative ATP binding site [chemical binding]; other site 323848007184 Response regulator receiver domain; Region: Response_reg; pfam00072 323848007185 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 323848007186 active site 323848007187 phosphorylation site [posttranslational modification] 323848007188 intermolecular recognition site; other site 323848007189 dimerization interface [polypeptide binding]; other site 323848007190 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 323848007191 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 323848007192 ligand binding site [chemical binding]; other site 323848007193 flexible hinge region; other site 323848007194 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 323848007195 non-specific DNA interactions [nucleotide binding]; other site 323848007196 DNA binding site [nucleotide binding] 323848007197 sequence specific DNA binding site [nucleotide binding]; other site 323848007198 putative cAMP binding site [chemical binding]; other site 323848007199 peroxidase; Provisional; Region: PRK15000 323848007200 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 323848007201 dimer interface [polypeptide binding]; other site 323848007202 decamer (pentamer of dimers) interface [polypeptide binding]; other site 323848007203 catalytic triad [active] 323848007204 peroxidatic and resolving cysteines [active] 323848007205 Ferritin-like domain; Region: Ferritin; pfam00210 323848007206 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 323848007207 dinuclear metal binding motif [ion binding]; other site 323848007208 Autoinducer synthetase; Region: Autoind_synth; cl17404 323848007209 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 323848007210 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 323848007211 N-terminal plug; other site 323848007212 ligand-binding site [chemical binding]; other site 323848007213 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 323848007214 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 323848007215 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 323848007216 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 323848007217 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 323848007218 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 323848007219 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 323848007220 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 323848007221 heme binding site [chemical binding]; other site 323848007222 ferroxidase pore; other site 323848007223 ferroxidase diiron center [ion binding]; other site 323848007224 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 323848007225 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 323848007226 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 323848007227 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 323848007228 Walker A/P-loop; other site 323848007229 ATP binding site [chemical binding]; other site 323848007230 Q-loop/lid; other site 323848007231 ABC transporter signature motif; other site 323848007232 Walker B; other site 323848007233 D-loop; other site 323848007234 H-loop/switch region; other site 323848007235 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 323848007236 putative carbohydrate binding site [chemical binding]; other site 323848007237 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323848007238 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 323848007239 S-adenosylmethionine binding site [chemical binding]; other site 323848007240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 323848007241 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323848007242 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 323848007243 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 323848007244 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323848007245 Methyltransferase domain; Region: Methyltransf_31; pfam13847 323848007246 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 323848007247 S-adenosylmethionine binding site [chemical binding]; other site 323848007248 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 323848007249 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 323848007250 Probable Catalytic site; other site 323848007251 metal-binding site 323848007252 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 323848007253 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323848007254 Rhamnan synthesis protein F; Region: RgpF; pfam05045 323848007255 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 323848007256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323848007257 NAD(P) binding site [chemical binding]; other site 323848007258 active site 323848007259 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 323848007260 HTH-like domain; Region: HTH_21; pfam13276 323848007261 Integrase core domain; Region: rve; pfam00665 323848007262 Integrase core domain; Region: rve_3; pfam13683 323848007263 Transposase; Region: HTH_Tnp_1; cl17663 323848007264 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 323848007265 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 323848007266 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 323848007267 active site 323848007268 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 323848007269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323848007270 NADH(P)-binding; Region: NAD_binding_10; pfam13460 323848007271 NAD(P) binding site [chemical binding]; other site 323848007272 active site 323848007273 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 323848007274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323848007275 hypothetical protein; Provisional; Region: PRK09256 323848007276 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 323848007277 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 323848007278 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 323848007279 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 323848007280 ATP binding site [chemical binding]; other site 323848007281 Mg2+ binding site [ion binding]; other site 323848007282 G-X-G motif; other site 323848007283 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323848007284 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 323848007285 active site 323848007286 phosphorylation site [posttranslational modification] 323848007287 intermolecular recognition site; other site 323848007288 putative hydrolase; Provisional; Region: PRK11460 323848007289 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 323848007290 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 323848007291 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 323848007292 hypothetical protein; Provisional; Region: PRK05255 323848007293 peptidase PmbA; Provisional; Region: PRK11040 323848007294 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 323848007295 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 323848007296 Autoinducer binding domain; Region: Autoind_bind; pfam03472 323848007297 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 323848007298 DNA binding residues [nucleotide binding] 323848007299 dimerization interface [polypeptide binding]; other site 323848007300 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 323848007301 putative catalytic site [active] 323848007302 putative phosphate binding site [ion binding]; other site 323848007303 active site 323848007304 metal binding site A [ion binding]; metal-binding site 323848007305 DNA binding site [nucleotide binding] 323848007306 putative AP binding site [nucleotide binding]; other site 323848007307 putative metal binding site B [ion binding]; other site 323848007308 GTP cyclohydrolase I; Provisional; Region: PLN03044 323848007309 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 323848007310 active site 323848007311 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 323848007312 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 323848007313 Walker A/P-loop; other site 323848007314 ATP binding site [chemical binding]; other site 323848007315 Q-loop/lid; other site 323848007316 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 323848007317 ABC transporter signature motif; other site 323848007318 Walker B; other site 323848007319 D-loop; other site 323848007320 H-loop/switch region; other site 323848007321 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 323848007322 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 323848007323 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 323848007324 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 323848007325 ferrochelatase; Reviewed; Region: hemH; PRK00035 323848007326 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 323848007327 C-terminal domain interface [polypeptide binding]; other site 323848007328 active site 323848007329 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 323848007330 active site 323848007331 N-terminal domain interface [polypeptide binding]; other site 323848007332 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 323848007333 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 323848007334 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 323848007335 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 323848007336 Protein export membrane protein; Region: SecD_SecF; pfam02355 323848007337 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 323848007338 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 323848007339 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 323848007340 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 323848007341 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 323848007342 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 323848007343 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 323848007344 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 323848007345 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 323848007346 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 323848007347 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 323848007348 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 323848007349 putative active site [active] 323848007350 Predicted membrane protein [Function unknown]; Region: COG4267 323848007351 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_3; cd03813 323848007352 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323848007353 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 323848007354 binding surface 323848007355 TPR motif; other site 323848007356 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 323848007357 GAF domain; Region: GAF_3; pfam13492 323848007358 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 323848007359 Tetratricopeptide repeat; Region: TPR_15; pfam13429 323848007360 cation transport regulator; Reviewed; Region: chaB; PRK09582 323848007361 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 323848007362 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 323848007363 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 323848007364 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 323848007365 dimerization domain [polypeptide binding]; other site 323848007366 dimer interface [polypeptide binding]; other site 323848007367 catalytic residues [active] 323848007368 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 323848007369 MltA specific insert domain; Region: MltA; smart00925 323848007370 3D domain; Region: 3D; pfam06725 323848007371 glutamate dehydrogenase; Provisional; Region: PRK09414 323848007372 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 323848007373 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 323848007374 NAD(P) binding site [chemical binding]; other site 323848007375 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 323848007376 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 323848007377 NAD(P) binding site [chemical binding]; other site 323848007378 catalytic residues [active] 323848007379 lytic murein transglycosylase; Provisional; Region: PRK11619 323848007380 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 323848007381 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 323848007382 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323848007383 catalytic residue [active] 323848007384 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 323848007385 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 323848007386 putative NAD(P) binding site [chemical binding]; other site 323848007387 active site 323848007388 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 323848007389 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 323848007390 active site 323848007391 NTP binding site [chemical binding]; other site 323848007392 metal binding triad [ion binding]; metal-binding site 323848007393 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 323848007394 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323848007395 Zn2+ binding site [ion binding]; other site 323848007396 Mg2+ binding site [ion binding]; other site 323848007397 methionine sulfoxide reductase A; Provisional; Region: PRK14054 323848007398 short chain dehydrogenase; Provisional; Region: PRK07024 323848007399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323848007400 NAD(P) binding site [chemical binding]; other site 323848007401 active site 323848007402 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 323848007403 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 323848007404 catalytic residues [active] 323848007405 hinge region; other site 323848007406 alpha helical domain; other site 323848007407 Sporulation related domain; Region: SPOR; pfam05036 323848007408 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 323848007409 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 323848007410 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 323848007411 active site 323848007412 HIGH motif; other site 323848007413 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 323848007414 KMSK motif region; other site 323848007415 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 323848007416 tRNA binding surface [nucleotide binding]; other site 323848007417 anticodon binding site; other site 323848007418 Uncharacterized conserved protein (DUF2278); Region: DUF2278; cl17857 323848007419 Lamin Tail Domain; Region: LTD; pfam00932 323848007420 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848007421 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848007422 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848007423 Uncharacterized conserved protein (DUF2278); Region: DUF2278; cl17857 323848007424 TIGR03790 family protein; Region: TIGR03790 323848007425 Rhomboid family; Region: Rhomboid; pfam01694 323848007426 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 323848007427 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 323848007428 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 323848007429 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 323848007430 ParB-like nuclease domain; Region: ParBc; pfam02195 323848007431 Ammonia monooxygenase/methane monooxygenase, subunit C; Region: AmoC; pfam04896 323848007432 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 323848007433 ATP cone domain; Region: ATP-cone; pfam03477 323848007434 ATP cone domain; Region: ATP-cone; pfam03477 323848007435 Class I ribonucleotide reductase; Region: RNR_I; cd01679 323848007436 active site 323848007437 dimer interface [polypeptide binding]; other site 323848007438 catalytic residues [active] 323848007439 effector binding site; other site 323848007440 R2 peptide binding site; other site 323848007441 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 323848007442 dimer interface [polypeptide binding]; other site 323848007443 putative radical transfer pathway; other site 323848007444 diiron center [ion binding]; other site 323848007445 tyrosyl radical; other site 323848007446 fumarate hydratase; Reviewed; Region: fumC; PRK00485 323848007447 Class II fumarases; Region: Fumarase_classII; cd01362 323848007448 active site 323848007449 tetramer interface [polypeptide binding]; other site 323848007450 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 323848007451 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 323848007452 active site 323848007453 nucleophile elbow; other site 323848007454 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 323848007455 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 323848007456 Ligand Binding Site [chemical binding]; other site 323848007457 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 323848007458 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 323848007459 Pilin (bacterial filament); Region: Pilin; pfam00114 323848007460 hypothetical protein; Validated; Region: PRK00228 323848007461 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 323848007462 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323848007463 active site 323848007464 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 323848007465 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 323848007466 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 323848007467 dihydroorotase; Provisional; Region: PRK07627 323848007468 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 323848007469 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 323848007470 active site 323848007471 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 323848007472 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 323848007473 active site 323848007474 Zn binding site [ion binding]; other site 323848007475 murein transglycosylase A; Provisional; Region: mltA; PRK11162 323848007476 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 323848007477 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 323848007478 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 323848007479 SEC-C motif; Region: SEC-C; pfam02810 323848007480 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 323848007481 Peptidase family M23; Region: Peptidase_M23; pfam01551 323848007482 Protein of unknown function (DUF721); Region: DUF721; pfam05258 323848007483 cell division protein FtsZ; Validated; Region: PRK09330 323848007484 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 323848007485 nucleotide binding site [chemical binding]; other site 323848007486 SulA interaction site; other site 323848007487 cell division protein FtsA; Region: ftsA; TIGR01174 323848007488 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 323848007489 nucleotide binding site [chemical binding]; other site 323848007490 Cell division protein FtsA; Region: FtsA; pfam14450 323848007491 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 323848007492 Cell division protein FtsQ; Region: FtsQ; pfam03799 323848007493 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 323848007494 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 323848007495 ATP-grasp domain; Region: ATP-grasp_4; cl17255 323848007496 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 323848007497 FAD binding domain; Region: FAD_binding_4; pfam01565 323848007498 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 323848007499 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 323848007500 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 323848007501 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323848007502 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323848007503 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 323848007504 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 323848007505 active site 323848007506 homodimer interface [polypeptide binding]; other site 323848007507 cell division protein FtsW; Region: ftsW; TIGR02614 323848007508 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 323848007509 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323848007510 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323848007511 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 323848007512 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 323848007513 Mg++ binding site [ion binding]; other site 323848007514 putative catalytic motif [active] 323848007515 putative substrate binding site [chemical binding]; other site 323848007516 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 323848007517 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 323848007518 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323848007519 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323848007520 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 323848007521 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 323848007522 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323848007523 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323848007524 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 323848007525 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 323848007526 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 323848007527 Cell division protein FtsL; Region: FtsL; pfam04999 323848007528 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 323848007529 MraW methylase family; Region: Methyltransf_5; cl17771 323848007530 cell division protein MraZ; Reviewed; Region: PRK00326 323848007531 MraZ protein; Region: MraZ; pfam02381 323848007532 MraZ protein; Region: MraZ; pfam02381 323848007533 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 323848007534 HD domain; Region: HD_4; pfam13328 323848007535 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 323848007536 synthetase active site [active] 323848007537 NTP binding site [chemical binding]; other site 323848007538 metal binding site [ion binding]; metal-binding site 323848007539 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 323848007540 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 323848007541 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 323848007542 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 323848007543 Competence protein; Region: Competence; pfam03772 323848007544 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 323848007545 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 323848007546 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 323848007547 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 323848007548 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 323848007549 Walker A/P-loop; other site 323848007550 ATP binding site [chemical binding]; other site 323848007551 Q-loop/lid; other site 323848007552 ABC transporter signature motif; other site 323848007553 Walker B; other site 323848007554 D-loop; other site 323848007555 H-loop/switch region; other site 323848007556 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 323848007557 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323848007558 FtsX-like permease family; Region: FtsX; pfam02687 323848007559 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 323848007560 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 323848007561 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 323848007562 metal binding site 2 [ion binding]; metal-binding site 323848007563 putative DNA binding helix; other site 323848007564 metal binding site 1 [ion binding]; metal-binding site 323848007565 dimer interface [polypeptide binding]; other site 323848007566 structural Zn2+ binding site [ion binding]; other site 323848007567 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 323848007568 FkbH-like domain; Region: FkbH; TIGR01686 323848007569 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 323848007570 active site 323848007571 motif I; other site 323848007572 motif II; other site 323848007573 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 323848007574 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 323848007575 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u9; cd10933 323848007576 putative active site [active] 323848007577 putative catalytic site [active] 323848007578 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 323848007579 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 323848007580 active site 323848007581 dimer interface [polypeptide binding]; other site 323848007582 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 323848007583 Ligand Binding Site [chemical binding]; other site 323848007584 Molecular Tunnel; other site 323848007585 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 323848007586 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 323848007587 putative ADP-binding pocket [chemical binding]; other site 323848007588 exosortase A; Region: exosortase_1; TIGR03109 323848007589 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 323848007590 EpsI family protein; Region: EpsI_fam; TIGR02914 323848007591 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 323848007592 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 323848007593 FemAB-related protein, PEP-CTERM system-associated; Region: pepcterm_femAB; TIGR03019 323848007594 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 323848007595 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 323848007596 putative active site [active] 323848007597 putative catalytic site [active] 323848007598 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 323848007599 AAA ATPase domain; Region: AAA_16; pfam13191 323848007600 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 323848007601 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 323848007602 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 323848007603 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 323848007604 Chain length determinant protein; Region: Wzz; cl15801 323848007605 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 323848007606 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 323848007607 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 323848007608 SLBB domain; Region: SLBB; pfam10531 323848007609 epoxyqueuosine reductase; Region: TIGR00276 323848007610 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 323848007611 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 323848007612 AMIN domain; Region: AMIN; pfam11741 323848007613 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 323848007614 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 323848007615 active site 323848007616 metal binding site [ion binding]; metal-binding site 323848007617 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 323848007618 nudix motif; other site 323848007619 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 323848007620 Protein of unknown function, DUF482; Region: DUF482; pfam04339 323848007621 NAD synthetase; Provisional; Region: PRK13981 323848007622 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 323848007623 multimer interface [polypeptide binding]; other site 323848007624 active site 323848007625 catalytic triad [active] 323848007626 protein interface 1 [polypeptide binding]; other site 323848007627 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 323848007628 homodimer interface [polypeptide binding]; other site 323848007629 NAD binding pocket [chemical binding]; other site 323848007630 ATP binding pocket [chemical binding]; other site 323848007631 Mg binding site [ion binding]; other site 323848007632 active-site loop [active] 323848007633 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 323848007634 Nitrogen regulatory protein P-II; Region: P-II; smart00938 323848007635 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 323848007636 Peptidase family M48; Region: Peptidase_M48; pfam01435 323848007637 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 323848007638 TPR motif; other site 323848007639 binding surface 323848007640 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 323848007641 homodimer interface [polypeptide binding]; other site 323848007642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848007643 catalytic residue [active] 323848007644 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 323848007645 FAD binding site [chemical binding]; other site 323848007646 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 323848007647 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 323848007648 homotetramer interface [polypeptide binding]; other site 323848007649 ligand binding site [chemical binding]; other site 323848007650 catalytic site [active] 323848007651 NAD binding site [chemical binding]; other site 323848007652 S-adenosylmethionine synthetase; Validated; Region: PRK05250 323848007653 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 323848007654 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 323848007655 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 323848007656 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 323848007657 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 323848007658 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 323848007659 Protein of unknown function, DUF484; Region: DUF484; cl17449 323848007660 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 323848007661 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 323848007662 active site 323848007663 DNA binding site [nucleotide binding] 323848007664 Int/Topo IB signature motif; other site 323848007665 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 323848007666 active site 323848007667 HslU subunit interaction site [polypeptide binding]; other site 323848007668 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 323848007669 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848007670 Walker A motif; other site 323848007671 ATP binding site [chemical binding]; other site 323848007672 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 323848007673 Walker B motif; other site 323848007674 arginine finger; other site 323848007675 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 323848007676 Predicted flavoproteins [General function prediction only]; Region: COG2081 323848007677 Methyltransferase domain; Region: Methyltransf_23; pfam13489 323848007678 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 323848007679 S-adenosylmethionine binding site [chemical binding]; other site 323848007680 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 323848007681 hypothetical protein; Provisional; Region: PRK05409 323848007682 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 323848007683 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 323848007684 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 323848007685 RNase E interface [polypeptide binding]; other site 323848007686 trimer interface [polypeptide binding]; other site 323848007687 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 323848007688 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 323848007689 RNase E interface [polypeptide binding]; other site 323848007690 trimer interface [polypeptide binding]; other site 323848007691 active site 323848007692 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 323848007693 putative nucleic acid binding region [nucleotide binding]; other site 323848007694 G-X-X-G motif; other site 323848007695 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 323848007696 RNA binding site [nucleotide binding]; other site 323848007697 domain interface; other site 323848007698 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 323848007699 16S/18S rRNA binding site [nucleotide binding]; other site 323848007700 S13e-L30e interaction site [polypeptide binding]; other site 323848007701 25S rRNA binding site [nucleotide binding]; other site 323848007702 hopanoid-associated phosphorylase; Region: HpnG; TIGR03468 323848007703 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 323848007704 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 323848007705 Active site cavity [active] 323848007706 catalytic acid [active] 323848007707 VacJ like lipoprotein; Region: VacJ; cl01073 323848007708 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 323848007709 hopanoid biosynthesis associated membrane protein HpnM; Region: HpnM; TIGR03481 323848007710 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 323848007711 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 323848007712 FeS/SAM binding site; other site 323848007713 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 323848007714 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 323848007715 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 323848007716 trimer interface [polypeptide binding]; other site 323848007717 eyelet of channel; other site 323848007718 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 323848007719 active site 323848007720 ribulose/triose binding site [chemical binding]; other site 323848007721 phosphate binding site [ion binding]; other site 323848007722 substrate (anthranilate) binding pocket [chemical binding]; other site 323848007723 product (indole) binding pocket [chemical binding]; other site 323848007724 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 323848007725 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 323848007726 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 323848007727 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 323848007728 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 323848007729 glutamine binding [chemical binding]; other site 323848007730 catalytic triad [active] 323848007731 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 323848007732 TonB C terminal; Region: TonB_2; pfam13103 323848007733 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 323848007734 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 323848007735 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 323848007736 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 323848007737 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 323848007738 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 323848007739 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 323848007740 putative active site [active] 323848007741 catalytic site [active] 323848007742 putative metal binding site [ion binding]; other site 323848007743 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 323848007744 haemagglutination activity domain; Region: Haemagg_act; pfam05860 323848007745 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 323848007746 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 323848007747 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 323848007748 Surface antigen; Region: Bac_surface_Ag; pfam01103 323848007749 transcriptional regulator EpsA; Region: EpsA; TIGR03020 323848007750 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 323848007751 DNA binding residues [nucleotide binding] 323848007752 dimerization interface [polypeptide binding]; other site 323848007753 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 323848007754 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 323848007755 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 323848007756 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 323848007757 TPR motif; other site 323848007758 binding surface 323848007759 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 323848007760 Secretin and TonB N terminus short domain; Region: STN; smart00965 323848007761 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 323848007762 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 323848007763 dockerin binding interface; other site 323848007764 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 323848007765 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 323848007766 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 323848007767 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 323848007768 Walker A motif; other site 323848007769 ATP binding site [chemical binding]; other site 323848007770 Walker B motif; other site 323848007771 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 323848007772 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323848007773 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 323848007774 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 323848007775 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 323848007776 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 323848007777 Predicted integral membrane protein [Function unknown]; Region: COG5652 323848007778 LexA repressor; Provisional; Region: PRK12423 323848007779 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 323848007780 Catalytic site [active] 323848007781 Cell division inhibitor SulA; Region: SulA; cl01880 323848007782 DNA Polymerase Y-family; Region: PolY_like; cd03468 323848007783 active site 323848007784 DNA binding site [nucleotide binding] 323848007785 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 323848007786 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 323848007787 putative active site [active] 323848007788 putative PHP Thumb interface [polypeptide binding]; other site 323848007789 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 323848007790 generic binding surface I; other site 323848007791 generic binding surface II; other site 323848007792 hypothetical protein; Provisional; Region: PRK11667 323848007793 Uncharacterized conserved protein [Function unknown]; Region: COG3791 323848007794 AIPR protein; Region: AIPR; pfam10592 323848007795 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848007796 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848007797 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848007798 MT-A70; Region: MT-A70; cl01947 323848007799 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 323848007800 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 323848007801 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 323848007802 UbiA prenyltransferase family; Region: UbiA; pfam01040 323848007803 Chorismate lyase; Region: Chor_lyase; cl01230 323848007804 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 323848007805 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 323848007806 gating phenylalanine in ion channel; other site 323848007807 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 323848007808 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 323848007809 ABC-ATPase subunit interface; other site 323848007810 dimer interface [polypeptide binding]; other site 323848007811 putative PBP binding regions; other site 323848007812 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 323848007813 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 323848007814 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 323848007815 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848007816 Walker A motif; other site 323848007817 ATP binding site [chemical binding]; other site 323848007818 Walker B motif; other site 323848007819 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 323848007820 arginine finger; other site 323848007821 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 323848007822 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 323848007823 dimerization interface [polypeptide binding]; other site 323848007824 putative ATP binding site [chemical binding]; other site 323848007825 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 323848007826 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 323848007827 active site 323848007828 substrate binding site [chemical binding]; other site 323848007829 cosubstrate binding site; other site 323848007830 catalytic site [active] 323848007831 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 323848007832 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 323848007833 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 323848007834 S-adenosylmethionine binding site [chemical binding]; other site 323848007835 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 323848007836 PLD-like domain; Region: PLDc_2; pfam13091 323848007837 putative active site [active] 323848007838 catalytic site [active] 323848007839 Mechanosensitive ion channel; Region: MS_channel; pfam00924 323848007840 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323848007841 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 323848007842 dimer interface [polypeptide binding]; other site 323848007843 active site 323848007844 metal binding site [ion binding]; metal-binding site 323848007845 glutathione binding site [chemical binding]; other site 323848007846 Rubredoxin [Energy production and conversion]; Region: COG1773 323848007847 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 323848007848 iron binding site [ion binding]; other site 323848007849 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 323848007850 dimer interface [polypeptide binding]; other site 323848007851 substrate binding site [chemical binding]; other site 323848007852 ATP binding site [chemical binding]; other site 323848007853 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 323848007854 thiamine phosphate binding site [chemical binding]; other site 323848007855 active site 323848007856 pyrophosphate binding site [ion binding]; other site 323848007857 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 323848007858 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 323848007859 inhibitor-cofactor binding pocket; inhibition site 323848007860 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323848007861 catalytic residue [active] 323848007862 Cytochrome c553 [Energy production and conversion]; Region: COG2863 323848007863 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 323848007864 Cytochrome c; Region: Cytochrom_C; cl11414 323848007865 Sporulation related domain; Region: SPOR; cl10051 323848007866 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 323848007867 active site 323848007868 PII uridylyl-transferase; Provisional; Region: PRK03059 323848007869 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 323848007870 metal binding triad; other site 323848007871 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 323848007872 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323848007873 Zn2+ binding site [ion binding]; other site 323848007874 Mg2+ binding site [ion binding]; other site 323848007875 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 323848007876 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 323848007877 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 323848007878 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 323848007879 THF binding site; other site 323848007880 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 323848007881 substrate binding site [chemical binding]; other site 323848007882 THF binding site; other site 323848007883 zinc-binding site [ion binding]; other site 323848007884 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 323848007885 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 323848007886 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 323848007887 putative dimerization interface [polypeptide binding]; other site 323848007888 putative folate metabolism protein, CADD family; Region: fol_rel_CADD; TIGR04305 323848007889 threonine and homoserine efflux system; Provisional; Region: PRK10532 323848007890 EamA-like transporter family; Region: EamA; pfam00892 323848007891 Predicted membrane protein [Function unknown]; Region: COG1238 323848007892 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 323848007893 putative GSH binding site [chemical binding]; other site 323848007894 catalytic residues [active] 323848007895 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 323848007896 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 323848007897 S-adenosylmethionine binding site [chemical binding]; other site 323848007898 peptide chain release factor 1; Validated; Region: prfA; PRK00591 323848007899 This domain is found in peptide chain release factors; Region: PCRF; smart00937 323848007900 RF-1 domain; Region: RF-1; pfam00472 323848007901 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 323848007902 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 323848007903 tRNA; other site 323848007904 putative tRNA binding site [nucleotide binding]; other site 323848007905 putative NADP binding site [chemical binding]; other site 323848007906 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 323848007907 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 323848007908 Domain of unknown function DUF20; Region: UPF0118; pfam01594 323848007909 CsbD-like; Region: CsbD; cl17424 323848007910 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_5; cd04662 323848007911 nudix motif; other site 323848007912 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 323848007913 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 323848007914 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 323848007915 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848007916 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323848007917 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848007918 Predicted integral membrane proteins containing uncharacterized repeats [Function unknown]; Region: COG5563 323848007919 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848007920 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848007921 Predicted integral membrane proteins containing uncharacterized repeats [Function unknown]; Region: COG5563 323848007922 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848007923 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 323848007924 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 323848007925 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 323848007926 active site 323848007927 Riboflavin kinase; Region: Flavokinase; smart00904 323848007928 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 323848007929 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323848007930 active site 323848007931 HIGH motif; other site 323848007932 nucleotide binding site [chemical binding]; other site 323848007933 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 323848007934 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 323848007935 active site 323848007936 KMSKS motif; other site 323848007937 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 323848007938 tRNA binding surface [nucleotide binding]; other site 323848007939 anticodon binding site; other site 323848007940 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 323848007941 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 323848007942 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 323848007943 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 323848007944 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 323848007945 ATP binding site [chemical binding]; other site 323848007946 Mg++ binding site [ion binding]; other site 323848007947 motif III; other site 323848007948 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 323848007949 nucleotide binding region [chemical binding]; other site 323848007950 ATP-binding site [chemical binding]; other site 323848007951 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 323848007952 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 323848007953 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 323848007954 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 323848007955 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 323848007956 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 323848007957 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 323848007958 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 323848007959 Cu(I) binding site [ion binding]; other site 323848007960 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 323848007961 Low-spin heme binding site [chemical binding]; other site 323848007962 D-pathway; other site 323848007963 Putative water exit pathway; other site 323848007964 Binuclear center (active site) [active] 323848007965 K-pathway; other site 323848007966 Putative proton exit pathway; other site 323848007967 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 323848007968 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 323848007969 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 323848007970 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 323848007971 Ligand Binding Site [chemical binding]; other site 323848007972 Molecular Tunnel; other site 323848007973 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 323848007974 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 323848007975 dimer interface [polypeptide binding]; other site 323848007976 active site 323848007977 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323848007978 catalytic residues [active] 323848007979 substrate binding site [chemical binding]; other site 323848007980 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 323848007981 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 323848007982 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 323848007983 acyl-activating enzyme (AAE) consensus motif; other site 323848007984 acyl-activating enzyme (AAE) consensus motif; other site 323848007985 putative AMP binding site [chemical binding]; other site 323848007986 putative active site [active] 323848007987 putative CoA binding site [chemical binding]; other site 323848007988 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 323848007989 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 323848007990 active site 323848007991 phosphorylation site [posttranslational modification] 323848007992 intermolecular recognition site; other site 323848007993 dimerization interface [polypeptide binding]; other site 323848007994 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848007995 Walker A motif; other site 323848007996 ATP binding site [chemical binding]; other site 323848007997 Walker B motif; other site 323848007998 arginine finger; other site 323848007999 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 323848008000 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 323848008001 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 323848008002 ATP binding site [chemical binding]; other site 323848008003 Mg2+ binding site [ion binding]; other site 323848008004 G-X-G motif; other site 323848008005 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 323848008006 Bacterial sugar transferase; Region: Bac_transf; pfam02397 323848008007 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 323848008008 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 323848008009 active site 323848008010 phosphorylation site [posttranslational modification] 323848008011 intermolecular recognition site; other site 323848008012 dimerization interface [polypeptide binding]; other site 323848008013 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 323848008014 DNA binding residues [nucleotide binding] 323848008015 dimerization interface [polypeptide binding]; other site 323848008016 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 323848008017 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 323848008018 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 323848008019 Domain of unknown function (DUF2024); Region: DUF2024; pfam09630 323848008020 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 323848008021 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 323848008022 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 323848008023 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 323848008024 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 323848008025 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 323848008026 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 323848008027 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 323848008028 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 323848008029 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 323848008030 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 323848008031 catalytic residues [active] 323848008032 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 323848008033 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 323848008034 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 323848008035 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 323848008036 DsbD alpha interface [polypeptide binding]; other site 323848008037 catalytic residues [active] 323848008038 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 323848008039 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 323848008040 putative NAD(P) binding site [chemical binding]; other site 323848008041 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 323848008042 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 323848008043 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 323848008044 catalytic loop [active] 323848008045 iron binding site [ion binding]; other site 323848008046 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 323848008047 FAD binding pocket [chemical binding]; other site 323848008048 FAD binding motif [chemical binding]; other site 323848008049 phosphate binding motif [ion binding]; other site 323848008050 beta-alpha-beta structure motif; other site 323848008051 NAD binding pocket [chemical binding]; other site 323848008052 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 323848008053 HemY protein N-terminus; Region: HemY_N; pfam07219 323848008054 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 323848008055 binding surface 323848008056 TPR motif; other site 323848008057 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 323848008058 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 323848008059 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 323848008060 active site 323848008061 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 323848008062 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 323848008063 domain interfaces; other site 323848008064 active site 323848008065 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 323848008066 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 323848008067 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 323848008068 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 323848008069 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 323848008070 FeS/SAM binding site; other site 323848008071 TRAM domain; Region: TRAM; pfam01938 323848008072 Response regulator receiver domain; Region: Response_reg; pfam00072 323848008073 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 323848008074 active site 323848008075 phosphorylation site [posttranslational modification] 323848008076 intermolecular recognition site; other site 323848008077 dimerization interface [polypeptide binding]; other site 323848008078 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323848008079 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323848008080 metal binding site [ion binding]; metal-binding site 323848008081 active site 323848008082 I-site; other site 323848008083 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 323848008084 PAS domain; Region: PAS_9; pfam13426 323848008085 putative active site [active] 323848008086 heme pocket [chemical binding]; other site 323848008087 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323848008088 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 323848008089 dimer interface [polypeptide binding]; other site 323848008090 phosphorylation site [posttranslational modification] 323848008091 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 323848008092 ATP binding site [chemical binding]; other site 323848008093 Mg2+ binding site [ion binding]; other site 323848008094 G-X-G motif; other site 323848008095 Response regulator receiver domain; Region: Response_reg; pfam00072 323848008096 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 323848008097 active site 323848008098 phosphorylation site [posttranslational modification] 323848008099 intermolecular recognition site; other site 323848008100 dimerization interface [polypeptide binding]; other site 323848008101 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323848008102 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 323848008103 active site 323848008104 phosphorylation site [posttranslational modification] 323848008105 intermolecular recognition site; other site 323848008106 dimerization interface [polypeptide binding]; other site 323848008107 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 323848008108 putative binding surface; other site 323848008109 active site 323848008110 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 323848008111 PhoH-like protein; Region: PhoH; pfam02562 323848008112 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 323848008113 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 323848008114 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 323848008115 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 323848008116 Transporter associated domain; Region: CorC_HlyC; smart01091 323848008117 Inorganic pyrophosphatase; Region: Pyrophosphatase; pfam00719 323848008118 substrate binding site [chemical binding]; other site 323848008119 metal binding sites [ion binding]; metal-binding site 323848008120 ABC transporter ATPase component; Reviewed; Region: PRK11147 323848008121 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323848008122 Walker A/P-loop; other site 323848008123 ATP binding site [chemical binding]; other site 323848008124 Q-loop/lid; other site 323848008125 ABC transporter signature motif; other site 323848008126 Walker B; other site 323848008127 D-loop; other site 323848008128 H-loop/switch region; other site 323848008129 ABC transporter; Region: ABC_tran_2; pfam12848 323848008130 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 323848008131 Cytochrome c553 [Energy production and conversion]; Region: COG2863 323848008132 Cytochrome c553 [Energy production and conversion]; Region: COG2863 323848008133 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323848008134 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 323848008135 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 323848008136 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 323848008137 minor groove reading motif; other site 323848008138 helix-hairpin-helix signature motif; other site 323848008139 substrate binding pocket [chemical binding]; other site 323848008140 active site 323848008141 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 323848008142 ferredoxin; Provisional; Region: PRK08764 323848008143 Putative Fe-S cluster; Region: FeS; pfam04060 323848008144 4Fe-4S binding domain; Region: Fer4; pfam00037 323848008145 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 323848008146 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 323848008147 quinone interaction residues [chemical binding]; other site 323848008148 active site 323848008149 catalytic residues [active] 323848008150 FMN binding site [chemical binding]; other site 323848008151 substrate binding site [chemical binding]; other site 323848008152 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323848008153 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 323848008154 binding surface 323848008155 TPR motif; other site 323848008156 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323848008157 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323848008158 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 323848008159 TPR motif; other site 323848008160 binding surface 323848008161 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 323848008162 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 323848008163 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 323848008164 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 323848008165 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 323848008166 Ligand Binding Site [chemical binding]; other site 323848008167 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 323848008168 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 323848008169 FeS/SAM binding site; other site 323848008170 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 323848008171 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 323848008172 TPR motif; other site 323848008173 binding surface 323848008174 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323848008175 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 323848008176 ligand binding site [chemical binding]; other site 323848008177 translocation protein TolB; Provisional; Region: tolB; PRK02889 323848008178 TolB amino-terminal domain; Region: TolB_N; pfam04052 323848008179 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323848008180 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323848008181 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323848008182 TolA protein; Region: tolA_full; TIGR02794 323848008183 TonB C terminal; Region: TonB_2; pfam13103 323848008184 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 323848008185 TolR protein; Region: tolR; TIGR02801 323848008186 TolQ protein; Region: tolQ; TIGR02796 323848008187 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 323848008188 active site 323848008189 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 323848008190 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 323848008191 Walker A motif; other site 323848008192 ATP binding site [chemical binding]; other site 323848008193 Walker B motif; other site 323848008194 arginine finger; other site 323848008195 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 323848008196 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 323848008197 RuvA N terminal domain; Region: RuvA_N; pfam01330 323848008198 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 323848008199 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 323848008200 dimer interface [polypeptide binding]; other site 323848008201 putative DNA-binding cleft [nucleotide binding]; other site 323848008202 hypothetical protein; Validated; Region: PRK00110 323848008203 hydroxyglutarate oxidase; Provisional; Region: PRK11728 323848008204 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 323848008205 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 323848008206 PAS domain; Region: PAS; smart00091 323848008207 PAS fold; Region: PAS_4; pfam08448 323848008208 putative active site [active] 323848008209 heme pocket [chemical binding]; other site 323848008210 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 323848008211 PAS domain; Region: PAS_9; pfam13426 323848008212 putative active site [active] 323848008213 heme pocket [chemical binding]; other site 323848008214 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 323848008215 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323848008216 metal binding site [ion binding]; metal-binding site 323848008217 active site 323848008218 I-site; other site 323848008219 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 323848008220 dihydroxyacetone kinase, ATP-dependent; Region: dak_ATP; TIGR02361 323848008221 DAK2 domain; Region: Dak2; pfam02734 323848008222 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 323848008223 hydrophobic ligand binding site; other site 323848008224 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 323848008225 PEP-CTERM motif; Region: VPEP; pfam07589 323848008226 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 323848008227 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 323848008228 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 323848008229 putative active site [active] 323848008230 putative PHP Thumb interface [polypeptide binding]; other site 323848008231 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 323848008232 generic binding surface II; other site 323848008233 generic binding surface I; other site 323848008234 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 323848008235 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323848008236 catalytic residue [active] 323848008237 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 323848008238 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 323848008239 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 323848008240 active site 323848008241 (T/H)XGH motif; other site 323848008242 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 323848008243 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 323848008244 S-adenosylmethionine binding site [chemical binding]; other site 323848008245 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 323848008246 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 323848008247 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 323848008248 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 323848008249 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 323848008250 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 323848008251 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 323848008252 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 323848008253 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 323848008254 P loop; other site 323848008255 GTP binding site [chemical binding]; other site 323848008256 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 323848008257 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323848008258 Walker A/P-loop; other site 323848008259 ATP binding site [chemical binding]; other site 323848008260 Q-loop/lid; other site 323848008261 ABC transporter signature motif; other site 323848008262 Walker B; other site 323848008263 D-loop; other site 323848008264 H-loop/switch region; other site 323848008265 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 323848008266 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 323848008267 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 323848008268 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323848008269 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 323848008270 DNA binding residues [nucleotide binding] 323848008271 BolA-like protein; Region: BolA; pfam01722 323848008272 ABC-2 type transporter; Region: ABC2_membrane; cl17235 323848008273 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 323848008274 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 323848008275 Walker A/P-loop; other site 323848008276 ATP binding site [chemical binding]; other site 323848008277 Q-loop/lid; other site 323848008278 ABC transporter signature motif; other site 323848008279 Walker B; other site 323848008280 D-loop; other site 323848008281 H-loop/switch region; other site 323848008282 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 323848008283 anti sigma factor interaction site; other site 323848008284 regulatory phosphorylation site [posttranslational modification]; other site 323848008285 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 323848008286 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 323848008287 mce related protein; Region: MCE; pfam02470 323848008288 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 323848008289 Permease; Region: Permease; cl00510 323848008290 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 323848008291 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 323848008292 Walker A/P-loop; other site 323848008293 ATP binding site [chemical binding]; other site 323848008294 Q-loop/lid; other site 323848008295 ABC transporter signature motif; other site 323848008296 Walker B; other site 323848008297 D-loop; other site 323848008298 H-loop/switch region; other site 323848008299 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 323848008300 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 323848008301 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 323848008302 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 323848008303 S-adenosylmethionine binding site [chemical binding]; other site 323848008304 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 323848008305 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323848008306 ATP-grasp domain; Region: ATP-grasp_4; cl17255 323848008307 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 323848008308 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 323848008309 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 323848008310 carboxyltransferase (CT) interaction site; other site 323848008311 biotinylation site [posttranslational modification]; other site 323848008312 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 323848008313 Dehydroquinase class II; Region: DHquinase_II; pfam01220 323848008314 trimer interface [polypeptide binding]; other site 323848008315 active site 323848008316 dimer interface [polypeptide binding]; other site 323848008317 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 323848008318 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 323848008319 putative substrate translocation pore; other site 323848008320 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 323848008321 Cytochrome c; Region: Cytochrom_C; pfam00034 323848008322 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 323848008323 CopC domain; Region: CopC; pfam04234 323848008324 methane monooxygenase/ammonia monooxygenase, subunit B; Region: CH4_NH3mon_ox_B; TIGR03079 323848008325 Monooxygenase subunit B protein; Region: Monooxygenase_B; pfam04744 323848008326 methane monooxygenase/ammonia monooxygenase, subunit A; Region: CH4_NH3mon_ox_A; TIGR03080 323848008327 methane monooxygenase/ammonia monooxygenase, subunit C; Region: CH4_NH3mon_ox_C; TIGR03078 323848008328 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 323848008329 ParB-like nuclease domain; Region: ParBc; pfam02195 323848008330 KorB domain; Region: KorB; pfam08535 323848008331 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 323848008332 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 323848008333 P-loop; other site 323848008334 Magnesium ion binding site [ion binding]; other site 323848008335 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 323848008336 Magnesium ion binding site [ion binding]; other site 323848008337 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 323848008338 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 323848008339 S-adenosylmethionine binding site [chemical binding]; other site 323848008340 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 323848008341 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 323848008342 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 323848008343 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 323848008344 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 323848008345 YtxH-like protein; Region: YtxH; cl02079 323848008346 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 323848008347 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 323848008348 trmE is a tRNA modification GTPase; Region: trmE; cd04164 323848008349 G1 box; other site 323848008350 GTP/Mg2+ binding site [chemical binding]; other site 323848008351 Switch I region; other site 323848008352 G2 box; other site 323848008353 Switch II region; other site 323848008354 G3 box; other site 323848008355 G4 box; other site 323848008356 G5 box; other site 323848008357 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 323848008358 membrane protein insertase; Provisional; Region: PRK01318 323848008359 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 323848008360 Haemolytic domain; Region: Haemolytic; pfam01809 323848008361 Ribonuclease P; Region: Ribonuclease_P; cl00457 323848008362 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 323848008363 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 323848008364 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 323848008365 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 323848008366 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 323848008367 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 323848008368 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 323848008369 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 323848008370 non-specific DNA binding site [nucleotide binding]; other site 323848008371 salt bridge; other site 323848008372 sequence-specific DNA binding site [nucleotide binding]; other site 323848008373 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 323848008374 non-specific DNA binding site [nucleotide binding]; other site 323848008375 salt bridge; other site 323848008376 sequence-specific DNA binding site [nucleotide binding]; other site 323848008377 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 323848008378 active site 323848008379 DNA binding site [nucleotide binding] 323848008380 Int/Topo IB signature motif; other site 323848008381 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cd02259 323848008382 putative active site [active] 323848008383 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 323848008384 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 323848008385 RHS Repeat; Region: RHS_repeat; pfam05593 323848008386 RHS Repeat; Region: RHS_repeat; pfam05593 323848008387 RHS Repeat; Region: RHS_repeat; pfam05593 323848008388 RHS Repeat; Region: RHS_repeat; pfam05593 323848008389 RHS Repeat; Region: RHS_repeat; pfam05593 323848008390 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 323848008391 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 323848008392 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 323848008393 P-loop; other site 323848008394 Magnesium ion binding site [ion binding]; other site 323848008395 Abi-like protein; Region: Abi_2; pfam07751 323848008396 Domain of unknown function (DUF955); Region: DUF955; cl01076 323848008397 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 323848008398 sequence-specific DNA binding site [nucleotide binding]; other site 323848008399 salt bridge; other site 323848008400 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 323848008401 Integrase core domain; Region: rve; pfam00665 323848008402 Integrase core domain; Region: rve_3; pfam13683 323848008403 Transposase; Region: HTH_Tnp_1; pfam01527 323848008404 BsuBI/PstI restriction endonuclease C-terminus; Region: BsuBI_PstI_RE; pfam06616 323848008405 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 323848008406 S-adenosylmethionine binding site [chemical binding]; other site 323848008407 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 323848008408 ParA-like protein; Provisional; Region: PHA02518 323848008409 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 323848008410 P-loop; other site 323848008411 Magnesium ion binding site [ion binding]; other site 323848008412 Replication initiator protein A; Region: RPA; pfam10134 323848008413 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 323848008414 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 323848008415 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 323848008416 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 323848008417 AAA-like domain; Region: AAA_10; pfam12846 323848008418 Walker A motif; other site 323848008419 ATP binding site [chemical binding]; other site 323848008420 Walker B motif; other site 323848008421 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 323848008422 Resolvase, N terminal domain; Region: Resolvase; pfam00239 323848008423 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 323848008424 DNA-binding interface [nucleotide binding]; DNA binding site 323848008425 multiple promoter invertase; Provisional; Region: mpi; PRK13413 323848008426 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 323848008427 catalytic residues [active] 323848008428 catalytic nucleophile [active] 323848008429 Presynaptic Site I dimer interface [polypeptide binding]; other site 323848008430 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 323848008431 Synaptic Flat tetramer interface [polypeptide binding]; other site 323848008432 Synaptic Site I dimer interface [polypeptide binding]; other site 323848008433 DNA binding site [nucleotide binding] 323848008434 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 323848008435 DNA-binding interface [nucleotide binding]; DNA binding site 323848008436 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 323848008437 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 323848008438 non-specific DNA binding site [nucleotide binding]; other site 323848008439 salt bridge; other site 323848008440 sequence-specific DNA binding site [nucleotide binding]; other site 323848008441 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 323848008442 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 323848008443 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 323848008444 P-loop; other site 323848008445 Magnesium ion binding site [ion binding]; other site 323848008446 Replication initiator protein A; Region: RPA; pfam10134 323848008447 Conjugal transfer protein TraD; Region: TraD; pfam06412 323848008448 MobA/MobL family; Region: MobA_MobL; pfam03389 323848008449 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 triad...; Region: Tryp_SPc; cl00149 323848008450 cleavage site 323848008451 active site 323848008452 substrate binding sites [chemical binding]; other site 323848008453 Transposase; Region: HTH_Tnp_1; pfam01527 323848008454 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 323848008455 HTH-like domain; Region: HTH_21; pfam13276 323848008456 Integrase core domain; Region: rve; pfam00665 323848008457 Integrase core domain; Region: rve_3; pfam13683 323848008458 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 323848008459 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 323848008460 non-specific DNA binding site [nucleotide binding]; other site 323848008461 salt bridge; other site 323848008462 sequence-specific DNA binding site [nucleotide binding]; other site 323848008463 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031